NAMIC Wiki - User contributions [en]

2014 Project Week:CARMADocumentation

2014-01-10T03:26:38Z

Cates: /* Project Description */

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
Image:CmrslicerSite.png|Draft Site
</gallery>

==Key Investigators==
Josh Cates, Salma Bengali
==Project Description==
We will finalize documentation for the CARMA Slicer Extension. This is a comprehensive effort to
finish documentation for all aspects of the CARMA DBP through a single unified web page. Detailed documentation on the Slicer wiki and tutorials and data from the NAMIC Wiki, for example, will all be linked and accessible through this page.
<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* To establish an effect web presence for the CARMA DBP that (1) introduces the DBP and our Slicer Code and (2) organizes and directs users (naive and experienced) to the existing tutorials, Wiki pages, and code.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
* Finalize design of web page
* Collect and link pointers to tutorials, documentation and code
* Link the new page from the CARMA CMR Toolkit extension page and other important portals (e.g. the NAMIC Wiki, the SCI web pages, the CARMA web pages, etc.)
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
* The web page is in place and linked from the CMR Extension documentation.
[http://capulet.med.utah.edu/namic/cmrslicer/ Access the web page here].
</div>
</div>

DBP3:Utah

2014-01-10T03:12:12Z

Cates:

Back to [[DBP3:Main|NA-MIC DBPs]] | [[Cores|NA-MIC Cores]]
=== The CARMA CMR Slicer Extension ===
The Slicer CMR Toolkit was developed primarily to support a clinical workflow developed at CARMA and the
University of Utah for (1) segmentation of cardiac structures from MRI, (2) quantification of the amount of fibrosis and scar in the myocardium of cardiac chambers, and (3) visualization of 3D models of cardiac chambers and tissue damage.

For more complete information and to learn how to download the extension, please see
[http://capulet.med.utah.edu/namic/cmrslicer/ the official web page].

=== The CARMA DBP: MRI-based study and treatment of atrial fibrillation ===
Tissue remodeling of the atrial wall is the hallmark of Atrial Fibrillation
(AF), a progressive cardiac disease that develops over time (months to
years). The mechanisms of of this transformation are only partially understood,
but the current scientific focus on tissue remodeling and its putative role in
AF suggests an MRI image-based approach to the study of AF.

The Comprehensive Arrhythmia Research and MAnagement (CARMA) Center at the
University of Utah is a world leader in the rapidly emerging field of
MRI-managed evaluation and ablation of AF. Other groups have begun to recognize
the potential of this approach and to investigate and validate some of our
findings. Still others are developing new refinements of the MRI technique
driven by the specific needs of this application domain.

Preliminary investigation by CARMA has identified image processing and analysis
as the rate-limiting step to the development of MRI-based therapies. Novel
forms of MRI can be used to evaluate new patients, predict success before
ablation, analyze outcomes post-ablation, and guide repeat ablations. Such
MRI-based therapies, however, urgently require advanced tools and software to
support efficient workflows and accelerate the quantification and analysis of
images. The CARMA-NAMIC DBP project will address some of these needs with the
development of algorithms and tools for the automated segmentation of heart
structures and the MRI-based evaluation of AF progression and recovery.

This remainder of this wiki page describes ongoing CARMA-NAMIC activities and
specific plans. For more background information, references, and description of
the specific scientific and clinical aims of this project,
please see the project web page: http://www.na-mic.org/pages/DBP:Atrial_Fibrillation .

=== DBP Specific Aims ===
# Develop and validate image-based longitudinal diagnostic indices for AF
# Develop automatic segmentation methods for the atrium and adjacent structures
# Develop an AF scoring scheme to evaluate disease progression and recovery from therapy

[[Image:TV1.jpg|center|thumb|400px|The CARMA Center's Utah classification for Atrial Fibrillation staging involves segmentation of the left atrial wall from MRI, followed by quantification of enhanced vs. non-enhanced voxels in the wall.]]

==Activities==
=== Slicer Modules ===
* [[DBP3:Utah:SlicerModuleCMRToolkitWizard|CMR Toolkit Wizard]]
* [[DBP3:Utah:SlicerModuleInhomogeneity|Automatic Cardiac MRI Inhomogeneity Correction Filter]]
* [[DBP3:Utah:SlicerModuleAutoScar|Automatic Left Atrial (Post-ablation) Scar Detection]]
* [[DBP3:Utah:SlicerModuleCardiacRegistration|Cardiac MRI Registration]]
* [[DBP3:Utah:SlicerModuleCardiacRegistrationBRAINSFit|Cardiac MRI Registration Using BRAINSFit]]
* [[DBP3:Utah:SlicerModulePVAntrumCut|PV Antrum Cut Filter]]
* [[DBP3:Utah:SlicerModuleAxialDilate|Axial Dilate Filter]]
* [[DBP3:Utah:SlicerModuleBooleanRemove|Boolean REMOVE Filter]]
* [[DBP3:Utah:SlicerModuleThresholdModel|Threshold Model]]
* [[DBP3:Utah:SlicerModuleIsolatedConnected|Isolated Connected Image Filter]]
* [[DBP3:Utah:SlicerModuleConnectedThreshold|Connected Threshold Image Filter]]
* [[DBP3:Utah:SlicerModuleAutomatedLASegmentation|Automated Graph Cut LA Segmentation]]

=== Tutorials ===
* [[Media:CARMA_Inhomogeneity_correction_filter_tutorial.pptx|Automatic Cardiac MRI Inhomogeneity Correction Filter Tutorial]]
* [http://wiki.na-mic.org/Wiki/index.php?title=CARMA-LA-Scar_TutorialContestSummer2012 Automatic Left Atrial Scar Tutorial]
* [[Media:Carma_Registration_Tutorial.pptx|Cardiac MRI Registration Tutorial]]
* [[Media:Carma_BrainsFit_Registration_Tutorial.pptx|Cardiac MRI Registration Using BRAINSFit Tutorial]]
* [[Media:Carma_PVAntrumCutFilter_Tutorial_New.pptx|PV Antrum Cut Filter Tutorial]]
* [[Media:CARMA_Axial_Dilate_Filter_Tutorial.pptx|Axial Dilate Filter Tutorial]]
* [[Media:Carma_Boolean_Remove_Tutorial.pptx|Boolean REMOVE Filter Tutorial]]
* [[Media:CMRToolkit_Threshold_Model_Tutorial.pptx|Threshold Model Tutorial]]
* [[Media:Carma_Isolated_Connected_Filter_Tutorial.pptx|Isolated Connected Filter Tutorial]]
* [[Media:Carma_Connected_Threshold_Filter_Tutorial.pptx|Connected Threshold Filter Tutorial]]
* [[Media:CarmaWorkflowV2.pdf‎|Slicer Workflow Tutorial]]

=== Other Projects ===
* Image registration capabilities for longitudinal analysis: [[DBP3:Utah:RegSegPipeline|Registration & Segmentation pipeline pilots & workflow development (Dominik Meier, Alex Zaitsev)]]
* Evaluation of BRAINSFit and fiducial-based registration tools for LA wall alignment and longitudinal registration of PV: [[DBP3:Utah:PV_BFReg|BRAINSFit Registration of PVs]]
* Collaboration with GA Tech -
** Test and evaluate Behnood's wall segmentation - results and analysis are here: [[DBP3:Utah:AutoWallSeg|Automatic Wall Segmentation]]
** Test and evaluate Yi Gao's atlas-based endocardial segmentation algorithm: [[DBP3:Utah:AutoEndoSeg|Automatic Endocardial Segmentation]]
** Test and evaluate Yi Gao's image and segmentation-driven registration algorithm: [[DBP3:Utah:VecReg|Image and Segmentation-Driven Registration]]

=== Slicer4 Needs and Plans ===
Summary of the Slicer4 needs to support CARMA workflows can be found [[DBP3:Utah:Slicer4 | here]].

==Sample Data==
* Sixty anonymized datasets containing LGE-MRI image data and segmentations of the left atrium from patients with atrial fibrillation: [http://hdl.handle.net/1926/1755 Pre and Post Radiofrequency Ablation LGE-MRI Collection]
* Sixty segmentation datasets of the left atrium from patients with atrial fibrillation who have undergone radiofrequency catheter ablation for treatment: [http://hdl.handle.net/1926/1764 CARMA Longitudinal Left Atrial Shape Data]
* Two subjects, two time points: [[Media:CardiacMRIs.zip|CardiacMRIs]].

2014 How about the Future

2014-01-07T23:01:50Z

Cates: /* Where we go from here */

[[AHM_2014#Agenda|Back to AHM_2014 Agenda]]

{| border="00" cellpadding="5" cellspacing="0" width="90%"
|-
| align="left"|
=The Scoop=
<big><big>
*Project week will continue.
*3D Slicer 4 will continue.
</big></big>
=Introduction=
This page contains talking points for the opening session of the NA-MIC AHM 2014 (the last one).

| style="background: #ebeced" align="center"| [[Image:Slicer-country-stats-2013-11-16.png|500px|Slicer downloads by country and region]]
Slicer downloads by country and region
|-
|}

=What we have accomplished=
*Created an outstanding scientific and engineering community in the field of [http://en.wikipedia.org/wiki/Medical_image_computing Medical Image Computing] (MIC).
*Investigated novel algorithmic approaches: Particle systems, registration algorithms, segmentation algorithms,
*Created the NA-MIC kit, a free open source platform for MIC and the basis for 3D Slicer.
*3D Slicer is today a platform with worldwide impact.

=Highlights=
* Robust algorithms for segmentation in the face of anatomical variability: label fusion
* Comprehensive toolbox for the analysis of individual and population DTI data
* The predominant shape analysis toolbox in the field/used in clinical papers(SPHARM-PDM)
* A novel framework for modeling brain connectivity networks
* Robust pipeline for processing clinical brain images
* Automatic 4D segmentation of longitudinal brain MRI in severe TBI
* NAMIC researchers take lead in novel spatio-temporal image and shape analysis methodologies (Whitaker, Styner, Gerig, Tannenbaum and colleagues)

=Where we go from here=
*Project week will continue.
*3D Slicer 4 will continue.
*The remaining months of NA-MIC funding will be used to simplify the submission of extensions.
*Funding:
**NIH mandated sunset for NA-MIC in June 2014.
**[http://projectreporter.nih.gov/project_info_description.cfm?aid=8415024&icde=18711051&ddparam=&ddvalue=&ddsub=&cr=8&csb=default&cs=ASC NAC] funded through 2018. Ron Kikinis
**[http://projectreporter.nih.gov/project_info_description.cfm?aid=8606944&icde=18711051&ddparam=&ddvalue=&ddsub=&cr=1&csb=default&cs=ASC QIICR] funded through 2018. Ron Kikinis, Andrey Fedorov
** "An Open Source Software for Proton Treatment Planning," NCI/Federal Share Grant C06-CA059267 funded through Dec 2014, Greg Sharp
**[http://projectreporter.nih.gov/project_info_description.cfm?aid=8551816&icde=18802965&ddparam=&ddvalue=&ddsub=&cr=1&csb=default&cs=ASC 4DShape]"4D Shape Analysis for Modeling Spatiotemporal Change Trajectories in Huntington's" (NINDS, 07/01/12- 06/30/15) PIs Gerig/Fletcher Utah, co-investigators Johnson/Paulsen Iowa
** [http://projectreporter.nih.gov/project_info_description.cfm?aid=8576556&icde=18804072 NA-MIC Collaboration R01] (NIDCR) on "Quantification of 3D Bony Changes in Temporomandibular joint osteoarthritis", PI Cevidanes/U Michigan, co-investigators Martin Styner/Beatriz Paniagua/UNC, Steve Piper
**Several other grants are being worked on
*Packages
** "MABS," an end-user software for multi-atlas segmentation, Greg Sharp
** "SPHARM-PDM", an end-user software for shape analysis, also including group-wise based particle correspondence, Martin Styner
** "DTIPrep", Comprehensive DWI/DTI QC tool, Martin Styner
** "DTIAtlasBuilder", DTI co-registration and atlas building software, Martin Styner
** "DTIAtlasFiberAnalyzer", DTI fiber profile statistics generation, Martin Styner
** "FiberViewerLight", DTI fiber processing & clustering software, Martin Styner
** "CARMA Cardiac MR Tookit", Cardiac MRI segmentation and quantification software, CARMA Center

2014 Winter Project Week

2014-01-06T20:02:35Z

Cates: /* Atrial Fibrillation */

Back to [[Project Events]], [[AHM_2014]], [[Events]]

__NOTOC__
[[image:PW-SLC2014.png|300px]]

Project Week is a hands on activity -- programming using the open source [[NA-MIC-Kit|NA-MIC Kit]], algorithm design, and clinical application -- that has become one of the major events in the NA-MIC, NCIGT, and NAC calendars. It is held in the summer at MIT, typically the last week of June, and a shorter version is held in Salt Lake City in the winter, typically the second week of January.

Active preparation begins 6-8 weeks prior to the meeting, when a kick-off teleconference is hosted by the NA-MIC Engineering, Dissemination, and Leadership teams, the primary hosts of this event. Invitations to this call are sent to all NA-MIC members, past attendees of the event, as well as any parties who have expressed an interest in working with NA-MIC. The main goal of the kick-off call is to get an idea of which groups/projects will be active at the upcoming event, and to ensure that there is sufficient NA-MIC coverage for all. Subsequent teleconferences allow the hosts to finalize the project teams, consolidate any common components, and identify topics that should be discussed in breakout sessions. In the final days leading upto the meeting, all project teams are asked to fill in a template page on this wiki that describes the objectives and plan of their projects.

The event itself starts off with a short presentation by each project team, driven using their previously created description, and allows all participants to be acquainted with others who are doing similar work. In the rest of the week, about half the time is spent in breakout discussions on topics of common interest of subsets of the attendees, and the other half is spent in project teams, doing hands-on programming, algorithm design, or clinical application of NA-MIC kit tools. The hands-on activities are done in 10-20 small teams of size 3-5, each with a mix of experts in NA-MIC kit software, algorithms, and clinical. To facilitate this work, a large room is setup with several tables, with internet and power access, and each team gathers on a table with their individual laptops, connects to the internet to download their software and data, and is able to work on their projects. On the last day of the event, a closing presentation session is held in which each project team presents a summary of what they accomplished during the week.

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].
= Dates.Venue.Registration =

Please [[AHM_2014#Dates_Venue_Registration|click here for Dates, Venue, and Registration]] for this event.

= [[AHM_2014#Agenda|'''AGENDA''']] and Project List=

Please:
* [[AHM_2014#Agenda|'''Click here for the agenda for AHM 2014 and Project Week''']].
* [[#Projects|'''Click here to jump to Project list''']]

=Background and Preparation=

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].

Please make sure that you are on the [http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]

=Projects=
* [[2014_Project_Week_Template | Template for project pages]]

==TBI==
*[[2014_Project_Week:TBIatrophy|Multimodal neuroimaging for the quantification of brain atrophy at six months following severe traumatic brain injury]] (Andrei Irimia, SY Matthew Goh, Carinna M. Torgerson, John D. Van Horn)
*[[2014_Project_Week:TBIdemyelination|Systematic evaluation of axonal demyelination subsequent to traumatic brain injury using structural T1- and T2-weighted magnetic resonance imaging]] (Andrei Irimia, SY Matthew Goh, Carinna M. Torgerson, John D. Van Horn)
*[[2014_Project_Week:BrainAging|Mapping the effect of traumatic brain injury upon white matter connections in the human brain using 3D Slicer]] (Andrei Irimia, John D. Van Horn)
*[[2014_Project_Week:LongitudinalDTI|Patient-specific longitudinal DTI analysis in traumatic brain injury]] (Anuja Sharma, Andrei Irimia, Bo Wang, John D. Van Horn, Martin Styner, Guido gerig)
*[[2014_Project_Week:TBISegmentation|Testing the interactive segmentation algorithm for traumatic brain injury]] (Bo Wang, Marcel Prastawa, Andrei Irimia, John D. Van Horn, Guido Gerig)

==Atrial Fibrillation==
*[[2014_Project_Week:MRAFusionRegistration|DEMRI LA Segmentation via Image Fusion (MRA)]] (Salma, Josh, Alan)
*[[2014_Project_Week:LAFibrosisVisualizationModule|LA Fibrosis / Scar Visualization]] (Salma, Josh, Alan)
*[[2014_Project_Week:CARMADocumentation|CARMA Extension Documentation Project]] (Salma, Josh)
*[[2014_Project_Week:GraphCutsLASegmentationModule|LA Segmentation module using multi-column Graph Cuts]] (Gopal, Salma, Josh, Rob, Ross)
*[[2014_Project_Week:AblationSuccessRatePredictionUsingJointImageAndShapeAnalysis|Ablation Success Rate Prediction Using Joint Image And Shape Analysis]](Yi Gao, LiangJia Zhu, Josh Cates, Rob MacLeod, Sylvain Bouix, Ron Kikinis, Allen Tannenbaum)
*[[2014_Project_Week:GrowCutLevelSetLA|Grow cut, level set integration for interactive LA segmentation]] ( Liangjia Zhu, Ivan Kolesov, Yi Gao, Allen Tannenbaum)

==Huntington's Disease==
*[[2014_Project_Week:DWIDispersion|DWI Dispersion & Compressed Sensing Conversions]] (Hans, CF, Peter Savadjiev, Kent, David)
*[[2014_Project_Week:Modules scripting|Slicer module scripting]] (David)
*[[2014_Project_Week:DWIConverter|DWIConverter]] (Hans, Kent)
*[[2014_Project_Week:Slicer_Based_Surface_Template_Estimation|Slicer Based Surface Template Estimation]] (Saurabh Jain, Steve Pieper, Hans Johnson, Josh Cates)
*[[2014_Project_Week:HD_4DShapes|4D shape analysis: application to HD ]] (James Fishbaugh,Hans Johnson, Guido Gerig)
*[[2014_Project_Week:Shape_Registration_and_Regression|Shape registration and regression in Slicer4 ]] (James Fishbaugh,Hans Johnson, Guido Gerig)

==Head and Neck Cancer==
*[[2014_Project_Week:DIR_validation|DIR Validation]] (Nadya and Greg)
*[[2014_Project_Week:Hybrid_bspline|Hybrid B Spline]] (Nadya, Greg, Steve)
*[[2014_Project_Week:CarreraSlice|Interactive Segmentation]] (Ivan, LiangJia, Nadya, Yi, Greg, Allen)

==Slicer4 Extensions==
*[[2014_Project_Week:ShapePopulationViewer|Surface Visualization - ShapePopulationViewer]] (Alexis Girault, Francois Budin, Beatriz Panaigua, Martin Styner)
*[[2014_Project_Week:DTIAnalysisPipeline|DTI Analysis Pipeline as Slicer4 Extensions]] (Francois Budin, Martin Styner)

==Cardiac==
*[[2014_Project_Week:CardiacStemCellMonitoring|Monitoring engrafted stem cells in cardiac tissue with time series manganese enhanced MRI]] (Karl Diedrich)
*[[2014_Project_Week:CardiacCongenitalSegmentation|Whole-heart segmentation of cardiac MR images in congenital heart defect cases]] (Danielle Pace, Polina Golland)

==Stroke==

*[[2014_Project_Week:Multi-Tissue_Stroke_Segmentation|Multi-Tissue Stroke Segmentation]] (Polina Binder, Ramesh Sridharan, Polina Golland)
*[[2014_Project_Week:Processing_Pipelines|Processing Pipelines]] (Ramesh Sridharan, Polina Golland)

==Brain Segmentation==
*[[2014_Project_Week:MultiAtlas_MultiImage_Segmentation|Multi-Atlas based Multi-Image Segmentation]] (Minjeong Kim, Xiaofeng Liu, Jim Miller, Dinggang Shen)

==Image-Guided Interventions==
*[[2014_Project_Week:OpenIGTLink| OpenIGTLink Interface: New data types and structures]] (Junichi Tokuda, Andras Lasso, Steve Piper, ???)
*[[2014_Project_Week:Ultrasound Visualization and Navigation in Neurosurgery|Ultrasound Visualization and Navigation in Neurosurgery]] (Matthew Toews, Alireza Mehrtash, Csaba Pinter, Andras Lasso, Steve Pieper, William M. Wells III)
*[[2014_Project_Week:PercutaneousApproachAnalysis| Percutaneous Approach Analysis]] (Atsushi Yamada, Junichi Tokuda, Koichiro Murakami, ??)
*[[2014_Project_Week:EndoscopeConsole| Endoscope Console]] (Atsushi Yamada, Junichi Tokuda, ??)
*[[2014_Project_Week:Statistical Shape Model for robotic spine surgery| Statistical Shape Model for robotic spine surgery]] (Marine Clogenson, ???)
*[[2014_Project_Week:ImmersiveVR| Immersive VR devices]] (Franklin King, Andras Lasso)

==Radiation Therapy==
*[[2014_Project_Week:DICOM_RT|DICOM RT Export]] (Greg Sharp, Kevin Wang, others??)
*[[2014_Project_Week:DICOM_SRO|DICOM Spatial Registration Export]] (Greg Sharp, Kevin Wang, others??)
*[[2014_Project_Week:Registration_Evaluation|Interactive Registration and Evaluation]] (Kevin Wang, Steve Pieper, Greg Sharp)
*[[2014_Project_Week:External_Beam_Planning|External Beam Planning Visualization]] (Kevin Wang, Greg Sharp, Csaba Pinter)

==TMJ-OA==
* [[2014_Winter_Project_Week:Constrain Fiducial along Suface|Constrain Fiducial along Suface]] (Vinicius Boen, Nicole Aucoin, Beatriz Paniagua)
* [[2014_Winter_Project_Week:Cropping Multiple Surfaces|Cropping multiple surfaces simultaneously]] (Alexander, Jc, Steve, Vinicius, Beatriz Paniagua)
* [[2014_Winter_Project_Week:Color Code Tables|Color Coded Tables]] (Vinicius Boen, Beatriz Paniagua, Nicole Aucoin, Steve Pieper, Francois Budin)
* [[2014_Winter_Project_Week:4DShape Analysis of mandibular changes|4DShape Analysis of mandibular changes]] (Vinicius Boen, James Fishbaugh, Guido Gerig)

==Chronic Obstructive Pulmonary Disease ==
* [[2014_Winter_Project_Week:CIP Core|Chest Imaging Platform (CIP) - Core Infrastructure]] (Raul San Jose, Rola Harmouche, Pietro Nardelli, James Ross)
* [[2014_Winter_Project_Week:CIP Infrastructure Testing and SuperBuild|CIP Testing and SuperBuild]] (James Ross, Raul San Jose)
* [[2014_Winter_Project_Week:Slicer CIP Slicer MRML| Slicer CIP- MRML consolidation]] (Pietro Nardelli, Rola Harmouche, James Ross, Raul San Jose)
* [[2014_Winter_Project_Week:Slicer CIP Modules| Slicer CIP- Modules]] (Rola Harmouche, Pietro Nardelli, James Ross, Raul San Jose)

==[http://qiicr.org QIICR]==

*[[2014_Project_Week:4D_NIfTI_Multivolume|4D NIfTI Multivolume Support]] (Jayashree, Andrey, Jim, John)
*[[2014_Project_Week:RT_FormatConversions|RT and ITK Format Conversions]] (Jayashree, Andras, Csaba. John)
*[[2014_Project_Week:BatchConvertDICOM|Python Scripting Slicer DICOM read/write to convert segmentation objects]] (Jayashree, Andrey, Alireza, Steve, Jc, Hans, John)
*[[2014_Project_Week:PkModeling_user_tool|User module for DCE modeling]] (Andrey, Jayashree, Jim, Alireza, Steve, Ron)
*[[2014_Project_Week:DICOM_enhanced_multiframe|DICOM enhanced multiframe object support]] (Andrey, Alireza, David Clunie, Jayashree, Steve, Reinhard, Jim)
*[[2014_Project_Week:Quantitative_Index_Computation|Quantitative Index Computation]] (Ethan Ulrich, Reinhard Beichel, Nicole, Andrey, Jim)
*[[2014_Project_Week:TCIA Browser Extension in Slicer|TCIA Browser Extension in Slicer]] (Alireza, Andrey, Steve, Ron)
*[[2014_Project_Week:Slicer DICOM Module Interface Redesign|Slicer DICOM Module Interface Redesign]] (Alireza, Andrey, Steve, Ron)

==Infrastructure==
*[[2014_Project_Week:MRMLSceneSpeedUp|MRML Scene speed up]] (Jc, Andras Lasso)
*[[2014_Project_Week:MultidimensionalDataSupport|Multidimensional data support]] (Andras Lasso, Andriy Fedorov, Steve Pieper, JC, Kevin Wang)
*[[2014_Project_Week:MarkupsModule|Markups Module]] (Nicole Aucoin)
* [[2014_Winter_Project_Week:Logging|Logging (standardization, logging to file)]] (Nicole Aucoin, Steve Pieper, Jc, Andras Lasso, Csaba Pinter, ???)
*[[2014_Project_Week:CLI|CLI]] (Jim Miller)
* [[2014_Winter_Project_Week:Steered Registration|Steered Registration (LandmarkRegistration module)]] (Steve, Greg, Kevin, Vinicius, Marcel)
* [[2014_Winter_Project_Week:MRB Extension Dependencies|MRB Extension Dependencies]] (Steve, Jc, Jim, Nicole, Alex)
* [[2014_Winter_Project_Week:SubjectHierarchy|Subject hierarchy]] (Csaba Pinter, Andras Lasso, Steve Pieper, Jc, Jayashree, John, Alireza, Andrey)
* [[2014_Winter_Project_Week:IntegrationOfContourObject|Integration of Contour object]] (Csaba Pinter, Andras Lasso, Steve Pieper, ???)
* [[2014_Winter_Project_Week:NonlinearTransforms|Integration nonlinear transforms]] (Alex Yarmarkovich, Csaba Pinter, Andras Lasso, Steve Pieper, ???)
* [[2014_Winter_Project_Week:ParameterSerialization | JSON Parameter Serialization]] (Matt McCormick, Steve Pieper, Jim Miller)
* [[2014_Winter_Project_Week:XNATSlicerLink| 3DSlicer annotations in XNAT]] (Erwin Vast, Nicole Aucoin, Andrey Fedorov)
* [[2014_Winter_Project_Week:PlanarImage|Planar Images]] (Franklin King, Csaba Pinter, Andras Lasso)

2014 Project Week:LAFibrosisVisualizationModule

2014-01-06T19:56:26Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Utah: Salma Bengali, Josh Cates

[[File:Thresholded_example.png|thumb|center|300px|An example of a thresholded isosurface. Blue: Below threshold, Green: Above threshold.]]

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* The workflow at CARMA for generating fibrosis scores for patients involves creating an isosurface of the left atrium wall, with regions of scar overlaid. We have a preliminary module for visualization of scar / fibrosis, but need to expand with additional color maps.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
# Build slicer module for visualization of (1) fibrosis and (2) scar with custom color maps

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>

</div>
</div>

==Delivery Mechanism==

This work will be delivered to the NA-MIC Kit as a Slicer loadable module.

==References==
*[http://www.na-mic.org/Wiki/index.php/DBP3:Utah Utah DBP]

2014 Project Week:MRAFusionRegistration

2013-12-20T23:56:56Z

Cates:

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Josh Cates, Salma Bengali
==Project Description==
We have been developing an approach to segmentation of cardiac DE-MRI images that uses the associated
MRA to help define endocardial boundaries. This approach is possible because CARMA is now acquiring gated MRAs routinely for patients. The approach is to perform a quick, semi-automated segmentation of the LA in the MRA, register the MRA to the DE MRI, and then refine the registered segmentation based on the DE MRI data.
<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* To design and implement a Slicer module or wizard that walks the user through segmentation of the LA using the MRA in conjunction with the DE MRI
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
* Refine and test MRA segmentation based on available slicer tools
* Refine and test MRA to DE MRI segmentation in CMR toolkit extension
* Design and build Wizard module for slicer
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
*
</div>
</div>

2014 Project Week:MRAFusionRegistration

2013-12-20T23:55:19Z

Cates:

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Josh Cates, Salma Bengali
==Project Description==
We have been developing an approach to segmentation of cardiac DE-MRI images that uses the associated
MRA to help define endocardial boundaries. This approach is possible because CARMA is now acquiring gated MRAs routinely for patients. The approach is to perform a quick, semi-automated segmentation of the LA in the MRA, register the MRA to the DE MRI, and then refine the registered segmentation based on the DE MRI data.
<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* To design and implement a Slicer module or wizard
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
*
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
*
</div>
</div>

2014 Project Week:LAFibrosisVisualizationModule

2013-12-20T23:28:47Z

Cates:

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Utah: Salma Bengali, Josh Cates

[[File:Thresholded_example.png|thumb|center|300px|An example of a thresholded isosurface. Blue: Below threshold, Green: Above threshold.]]

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* The workflow at CARMA for generating fibrosis scores for patients involves creating an isosurface of the left atrium wall, with regions of scar overlaid. Thresholding of the isosurface is not currently possible in Slicer and we would like to explore if this feature could possibly be added to Slicer.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
# Build slicer module for visualization of (1) fibrosis and (2) scar with custom color maps

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>

</div>
</div>

==Delivery Mechanism==

This work will be delivered to the NA-MIC Kit as a Slicer loadable module.

==References==
*[http://www.na-mic.org/Wiki/index.php/DBP3:Utah Utah DBP]

2014 Project Week:MRAFusionRegistration

2013-12-20T23:26:35Z

Cates: Created page with '__NOTOC__ <gallery> Image:PW-SLC2014.png|Projects List </gallery> ==Key Investigators== ==Project Description== <div style="margin: 20px;…'

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==

==Project Description==

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
*
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
*
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
*
</div>
</div>

2014 Project Week:LAFibrosisVisualizationModule

2013-12-20T23:26:23Z

Cates: Created page with '__NOTOC__ <gallery> Image:PW-SLC2014.png|Projects List </gallery> ==Key Investigators== ==Project Description== <div style="margin: 20px;…'

2014 Winter Project Week

2013-12-20T23:23:32Z

Cates: /* Atrial Fibrillation */

Back to [[Project Events]], [[AHM_2014]], [[Events]]

__NOTOC__
[[image:PW-SLC2014.png|300px]]

Project Week is a hands on activity -- programming using the open source [[NA-MIC-Kit|NA-MIC Kit]], algorithm design, and clinical application -- that has become one of the major events in the NA-MIC, NCIGT, and NAC calendars. It is held in the summer at MIT, typically the last week of June, and a shorter version is held in Salt Lake City in the winter, typically the second week of January.

Active preparation begins 6-8 weeks prior to the meeting, when a kick-off teleconference is hosted by the NA-MIC Engineering, Dissemination, and Leadership teams, the primary hosts of this event. Invitations to this call are sent to all na-mic members, past attendees of the event, as well as any parties who have expressed an interest in working with NA-MIC. The main goal of the kick-off call is to get an idea of which groups/projects will be active at the upcoming event, and to ensure that there is sufficient NA-MIC coverage for all. Subsequent teleconferences allow the hosts to finalize the project teams, consolidate any common components, and identify topics that should be discussed in breakout sessions. In the final days leading upto the meeting, all project teams are asked to fill in a template page on this wiki that describes the objectives and plan of their projects.

The event itself starts off with a short presentation by each project team, driven using their previously created description, and allows all participants to be acquainted with others who are doing similar work. In the rest of the week, about half the time is spent in breakout discussions on topics of common interest of subsets of the attendees, and the other half is spent in project teams, doing hands-on programming, algorithm design, or clinical application of NA-MIC kit tools. The hands-on activities are done in 10-20 small teams of size 3-5, each with a mix of experts in NA-MIC kit software, algorithms, and clinical. To facilitate this work, a large room is setup with several tables, with internet and power access, and each team gathers on a table with their individual laptops, connects to the internet to download their software and data, and is able to work on their projects. On the last day of the event, a closing presentation session is held in which each project team presents a summary of what they accomplished during the week.

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].
= Dates.Venue.Registration =

Please [[AHM_2014#Dates_Venue_Registration|click here for Dates, Venue, and Registration]] for this event.

= [[AHM_2014#Agenda|'''AGENDA''']] and Project List=

Please:
* [[AHM_2014#Agenda|'''Click here for the agenda for AHM 2014 and Project Week''']].
* [[#Projects|'''Click here to jump to Project list''']]

=Background and Preparation=

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].

Please make sure that you are on the [http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]

=Projects=
* [[2014_Project_Week_Template | Template for project pages]]

==TBI==
*[[2014_Project_Week:TBIatrophy|Multimodal neuroimaging for the quantification of brain atrophy at six months following severe traumatic brain injury]] (Andrei Irimia, SY Matthew Goh, Carinna M. Torgerson, John D. Van Horn)
*[[2014_Project_Week:TBIdemyelination|Systematic evaluation of axonal demyelination subsequent to traumatic brain injury using structural T1- and T2-weighted magnetic resonance imaging]] (Andrei Irimia, SY Matthew Goh, Carinna M. Torgerson, John D. Van Horn)
*[[2014_Project_Week:BrainAging|Mapping the effect of traumatic brain injury upon white matter connections in the human brain using 3D Slicer]] (Andrei Irimia, John D. Van Horn)
*[[2014_Project_Week:LongitudinalDTI|Patient-specific longitudinal DTI analysis in traumatic brain injury]] (Anuja Sharma, Andrei Irimia, Bo Wang, John D. Van Horn, Martin Styner, Guido gerig)
*[[2014_Project_Week:TBISegmentation|Testing the interactive segmentation algorithm for traumatic brain injury]] (Bo Wang, Marcel Prastawa, Andrei Irimia, John D. Van Horn, Guido Gerig)

==Atrial Fibrillation==
*[[2014_Project_Week:MRAFusionRegistration|DEMRI LA Segmentation via Image Fusion (MRA)]] (Josh, Salma, Alan)
*[[2014_Project_Week:LAFibrosisVisualizationModule|LA Fibrosis / Scar Visualization]] (Josh, Salma, Alan)
*[[2014_Project_Week:CARMADocumentation|CARMA Extension Documentation Project]] (Josh, Salma)
*[[2014_Project_Week:GraphCutsLASegmentationModule|LA Segmentation module using multi-column Graph Cuts]] (Gopal, Salma, Josh, Rob, Ross)

==Slicer4 Extensions==
*[[2014_Project_Week:ShapePopulationViewer|Surface Visualization - ShapePopulationViewer]] (Alexis Girault, Francois Budin, Beatriz Panaigua, Martin Styner)

==Huntington's Disease==
*[[2014_Project_Week:DWIDispersion|DWI Dispersion]] (Hans, CF, Peter Savadjiev)
*[[2014_Project_Week:DTIAnalysis|DTI Compressed Sensing?]] (Hans, CF, Peter Savadjiev)
*[[2014_Project_Week:Modules scripting|Slicer module scripting?]] (Dave)
*[[2014_Project_Week:DWIConverter|DWIConverter?]] (Hans, Kent, Peter Savadjiev)
*[[2014_Project_Week:Slicer_Based_Surface_Template_Estimation|Slicer Based Surface Template Estimation]] (Saurabh JHU, Steve Pieper, Hans Johnson, Josh Cates)
*[[2014_Project_Week:HD_4DShapes|4D shape analysis: application to HD ]] (James Fishbaugh,Hans Johnson, Guido Gerig)
*[[2014_Project_Week:Shape_Registration_and_Regression|Shape registration and regression in Slicer4 ]] (James Fishbaugh,Hans Johnson, Guido Gerig)

==Head and Neck Cancer==
*[[2014_Project_Week:DIR_validation|DIR Validation]] (Nadya and Greg)
*[[2014_Project_Week:Hybrid_bspline|Hybrid B Spline]] (Nadya, Greg, Steve)
*[[2014_Project_Week:KSlice|Interactive Segmentation]] (Ivan, Nadya, Greg, Allen)

==Stroke==

*[[2014_Project_Week:Multi-Tissue_Stroke_Segmentation|Multi-Tissue Stroke Segmentation]] (Ramesh, Polina B., Polina G.)

==Image-Guided Interventions==
*[[2014_Project_Week:Ultrasound Visualization and Navigation in Neurosurgery|Ultrasound Visualization and Navigation in Neurosurgery]] (Matthew Toews, Alireza Mehrtash, Csaba Pinter, Andras Lasso, Steve Pieper, William M. Wells III)
*[[2014_Project_Week:OpenIGTLink| OpenIGTLink Interface: New data types and structures]] (Junichi Tokuda, Andras Lasso, Steve Piper, ???)
*[[2014_Project_Week:Statistical Shape Model for robotic spine surgery| Statistical Shape Model for robotic spine surgery]] (Marine Clogenson, ???)

==Radiation Therapy==
*[[2014_Project_Week:DICOM_RT|DICOM RT Export]] (Greg Sharp, Kevin Wang, others??)
*[[2014_Project_Week:DICOM_SRO|DICOM Spatial Registration Export]] (Greg Sharp, Kevin Wang, others??)
*[[2014_Project_Week:Registration_Evaluation|Interactive Registration and Evaluation]] (Kevin Wang, Greg Sharp, others??)
*[[2014_Project_Week:External_Beam_Planning|External Beam Planning Visualization]] (Kevin Wang, Greg Sharp, Csaba Pinter)

==Medical Robotics==
==[http://qiicr.org QIICR]==

*[[2014_Project_Week:4D_NIfTI_Multivolume|4D NIfTI Multivolume Support]] (Jayashree, Andrey, Jim, John)
*[[2014_Project_Week:RT_FormatConversions|RT and ITK Format Conversions]] (Jayashree, Andras, Csaba. John)
*[[2014_Project_Week:BatchConvertDICOM|Python Scripting Slicer DICOM read/write to convert segmentation objects]] (Jayashree, Andrey, Alireza, Steve, Jc, Hans, John)
*[[2014_Project_Week:PkModeling_user_tool|User module for DCE modeling]] (Andrey, Jayashree, Jim, Alireza, Steve, Ron)
*[[2014_Project_Week:DICOM_enhanced_multiframe|DICOM enhanced multiframe object support]] (Andrey, Alireza, David Clunie, Jayashree, Steve, Reinhard, Jim)
*[[2014_Project_Week:Quantitative_Index_Computation|Quantitative Index Computation]] (Ethan Ulrich)
*[[2014_Project_Week:TCIA Browser Extension in Slicer|TCIA Browser Extension in Slicer]] (Alireza, Andrey, Steve, Ron)

==TMJ-OA==
* [[2014_Winter_Project_Week:Constrain Fiducial along Suface|Constrain Fiducial along Suface]] (Vinicius Boen, Nicole Aucoin, Beatriz Paniagua)
* [[2014_Winter_Project_Week:Cropping Multiple Surfaces|Cropping multiple surfaces simultaneously]] (Alexander, Jc, Steve, Vinicius, Beatriz Paniagua)
* [[2014_Winter_Project_Week:Color Code Tables|Color Coded Tables]] (Beatriz Paniagua, Vinicius Boen, Nicole Aucoin, Steve Pieper, Francois Budin)
* [[2014_Winter_Project_Week:4DShape Analysis of mandibular changes|4DShape Analysis of mandibular changes]] (James Fishbaugh, Guido Gerig, Vinicius Boen)

==Infrastructure==
*[[2014_Project_Week:SlicerSpeedUp|Slicer speed up]] (Jc, Andras Lasso, Steve Pieper)
*[[2014_Project_Week:MRMLSceneSpeedUp|MRML Scene speed up]] (Jc, Andras Lasso)
*[[2014_Project_Week:MultidimensionalDataSupport|Multidimensional data support]] (Andras Lasso, Andriy Fedorov, Steve Pieper, JC, Kevin Wang)
*CLI - Resources? Conditionals? Autonaming? Provenance? CTK unification? (Jim Miller)
*[[2014_Project_Week:MarkupsModule|Markups Module]] (Nicole Aucoin)
* [[2014_Winter_Project_Week:Steered Registration|Steered Registration]] (Steve, Greg, Kevin, Vinicius, Marcel)
* [[2014_Winter_Project_Week:MRB Extension Dependencies|MRB Extension Dependencies]] (Steve, Jc, Jim, Nicole, Alex)
* [[2014_Winter_Project_Week:SubjectHierarchy|Subject Hierarchy]] (Csaba Pinter, Andras Lasso, Steve Pieper, Jc, Jayashree, John, Alireza, Andrey)
* [[2014_Winter_Project_Week:IntegrationOfContourObject|Integration of Contour object]] (Csaba Pinter, Andras Lasso, Steve Pieper, ???)
* [[2014_Winter_Project_Week:NonlinearTransforms|Integration nonlinear transforms]] (Alex Yarmarkovich, Csaba Pinter, Andras Lasso, Steve Pieper, ???)

2014 Project Week:CARMADocumentation

2013-12-20T23:22:30Z

Cates:

2014 Project Week:CARMADocumentation

2013-12-20T23:20:40Z

Cates:

__NOTOC__
<gallery>
Image:PW-SLC2014.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Josh Cates, Salma Bengali
==Project Description==
We will finalize documentation for the CARMA Slicer Extension. This is a comprehensive effort to
finish documentation for all aspects of the CARMA DBP through a single unified web page. Detailed documentation on the Slicer wiki and tutorials and data from the NAMIC Wiki, for example, will all be linked and accessible through this page.
<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* To establish an effect web presence for the CARMA DBP that (1) introduces the DBP and our Slicer Code and (2) organizes and directs users (naive and experienced) to the existing tutorials, Wiki pages, and code.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
* Finalize design of web page
* Collect and link pointers to tutorials, documentation and code
* Link the new page from the CARMA CMR Toolkit extension page and other important portals (e.g. the NAMIC Wiki, the SCI web pages, the CARMA web pages, etc.)
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
*
</div>
</div>

2014 Project Week:CARMADocumentation

2013-12-20T23:19:19Z

Cates:

__NOTOC__
<gallery>
Image:CmrslicerSite.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Josh Cates, Salma Bengali
==Project Description==
We will finalize documentation for the CARMA Slicer Extension. This is a comprehensive effort to
finish documentation for all aspects of the CARMA DBP through a single unified web page. Detailed documentation on the Slicer wiki and tutorials and data from the NAMIC Wiki, for example, will all be linked and accessible through this page.
<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* To establish an effect web presence for the CARMA DBP that (1) introduces the DBP and our Slicer Code and (2) organizes and directs users (naive and experienced) to the existing tutorials, Wiki pages, and code.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
* Finalize design of web page
* Collect and link pointers to tutorials, documentation and code
* Link the new page from the CARMA CMR Toolkit extension page and other important portals (e.g. the NAMIC Wiki, the SCI web pages, the CARMA web pages, etc.)
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
*
</div>
</div>

File:CmrslicerSite.png

2013-12-20T23:18:54Z

Cates:

2014 Project Week:CARMADocumentation

2013-12-20T23:18:29Z

Cates: Created page with '__NOTOC__ <gallery> Image:cmrslicerSite.png|Projects List </gallery> ==Key Investigators== Josh Cates, Salma Bengali ==Project Description=…'

__NOTOC__
<gallery>
Image:cmrslicerSite.png|[[2014_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Josh Cates, Salma Bengali
==Project Description==
We will finalize documentation for the CARMA Slicer Extension. This is a comprehensive effort to
finish documentation for all aspects of the CARMA DBP through a single unified web page. Detailed documentation on the Slicer wiki and tutorials and data from the NAMIC Wiki, for example, will all be linked and accessible through this page.
<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* To establish an effect web presence for the CARMA DBP that (1) introduces the DBP and our Slicer Code and (2) organizes and directs users (naive and experienced) to the existing tutorials, Wiki pages, and code.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
* Finalize design of web page
* Collect and link pointers to tutorials, documentation and code
* Link the new page from the CARMA CMR Toolkit extension page and other important portals (e.g. the NAMIC Wiki, the SCI web pages, the CARMA web pages, etc.)
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
*
</div>
</div>

2014 Winter Project Week

2013-11-21T20:16:47Z

Cates: /* Atrial Fibrillation */

2013 Summer Project Week:CARMA Documentataion

2013-06-20T22:19:16Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:CARMA_CMR_TK_WEB.png|[[2013_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Utah: Salma Bengali, Alan Morris, Brian Zenger, Josh Cates, Rob MacLeod

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* To create a webpage that will serve as a resource from where information about the CARMA workflow, Slicer modules, documentation and tutorials can be accessed.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
To bring together all the data we have about the CARMA workflow and make it easy for a user to access it from the webpage.
</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have decided on a basic webpage design (see image) and have the prototype pages in place. We need to finish the descriptive sections on CARMA and the toolkit, and provide a few more links.

</div>
</div>

==Delivery Mechanism==

This work will be delivered to the NA-MIC Kit as a web page listed on our Slicer extension information page.

==References==
*[http://www.na-mic.org/Wiki/index.php/DBP3:Utah Utah DBP]

2013 Summer Project Week:CARMA Documentataion

2013-06-20T22:16:59Z

Cates:

__NOTOC__
<gallery>
Image:CARMA_CMR_TK_WEB.png|[[2013_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Utah: Salma Bengali, Alan Morris, Brian Zenger, Josh Cates, Rob MacLeod

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* To create a webpage that will serve as a resource from where information about the CARMA workflow, Slicer modules, documentation and tutorials can be accessed.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
To bring together all the data we have about the CARMA workflow and make it easy for a user to access it from the webpage.
</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
The webpage has been created here: [http://capulet.med.utah.edu/namic/ Cardiac MRI Toolkit]. We are currently adding more information to it.

</div>
</div>

==Delivery Mechanism==

This work will be delivered to the NA-MIC Kit as a web page listed on our Slicer extension information page.

==References==
*[http://www.na-mic.org/Wiki/index.php/DBP3:Utah Utah DBP]

File:CARMA CMR TK WEB.png

2013-06-20T22:15:40Z

Cates:

2013 Summer Project Week:CARMA Documentataion

2013-06-20T22:14:05Z

Cates:

__NOTOC__
<gallery>
Image:CARMA_CMRTK_WEB.png|[[2013_Summer_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Utah: Salma Bengali, Alan Morris, Brian Zenger, Josh Cates, Rob MacLeod

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
* To create a webpage that will serve as a resource from where information about the CARMA workflow, Slicer modules, documentation and tutorials can be accessed.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
To bring together all the data we have about the CARMA workflow and make it easy for a user to access it from the webpage.
</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
The webpage has been created here: [http://capulet.med.utah.edu/namic/ Cardiac MRI Toolkit]. We are currently adding more information to it.

</div>
</div>

==Delivery Mechanism==

This work will be delivered to the NA-MIC Kit as a web page listed on our Slicer extension information page.

==References==
*[http://www.na-mic.org/Wiki/index.php/DBP3:Utah Utah DBP]

2013 Summer Project Week

2013-05-16T18:59:38Z

Cates: /* Atrial Fibrillation */

Back to [[Events]]
[[image:PW-MIT2013.png|300px]]

Dates: June 17-21, 2013.

Location: MIT, Cambridge, MA.

==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 17
!style="width:18%" |Tuesday, June 18
!style="width:18%" |Wednesday, June 19
!style="width:18%" |Thursday, June 20
!style="width:18%" |Friday, June 21
|-
|
|bgcolor="#dbdbdb"|'''Project Presentations'''
|bgcolor="#6494ec"|'''NA-MIC Update Day'''
|
|bgcolor="#88aaae"|'''IGT and RT Day'''
|bgcolor="#faedb6"|'''Reporting Day'''
|-
|bgcolor="#ffffdd"|'''8:30am'''
|
|bgcolor="#ffffaa"|Breakfast
|bgcolor="#ffffaa"|Breakfast
|bgcolor="#ffffaa"|Breakfast
|bgcolor="#ffffaa"|Breakfast
|-
|bgcolor="#ffffdd"|'''9am-12pm'''
|
|'''10-11am''' [[2013 Project Week Breakout Session:Slicer4Python|Slicer4 Python Modules, Testing, Q&A]] <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
|'''9:30-11pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2013 Project Week Breakout Session: SimpleITK|Slicer and SimpleITK]] (Hans)
[[MIT_Project_Week_Rooms#32-D507|32-D507]]
|'''10am-12pm: <font color="#4020ff">Breakout Session:'''</font><br>[[2013 Project Week Breakout Session: IGT|Image-Guided Therapy]] (TBD)
[[MIT_Project_Week_Rooms#32-D407|32-D407]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
|-
|bgcolor="#ffffdd"|'''12pm-1pm'''
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch boxes; Adjourn by 1:30pm
|-
|bgcolor="#ffffdd"|'''1pm-5:30pm'''
|'''1-1:05pm: <font color="#503020">Ron Kikinis: Welcome</font>'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3:30-4:30pm''' [[2013 Summer Project Week Breakout Session:SlicerExtensions|Slicer4 Extensions]] (Jean-Christophe Fillion-Robin) <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
|'''1-3pm:''' [[Renewal-06-2013|NA-MIC Renewal]] <br>PIs <br>Closed Door Session with Ron
[[MIT_Project_Week_Rooms#32-D407|32-D407]]
<br>----------------------------------------<br>
'''3-4pm:''' [[2013_Tutorial_Contest|Tutorial Contest Presentations]] <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2013|Tutorial Contest Winner Announcement]]
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
|'''3-5:30pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2013 Summer Project Week Breakout Session:RT|Radiation Therapy]] (Greg, Csaba)
[[MIT_Project_Week_Rooms#32-D407|32-D407]]
|
|-
|bgcolor="#ffffdd"|'''5:30pm'''
|bgcolor="#f0e68b"|Adjourn for the day
|bgcolor="#f0e68b"|Adjourn for the day
|bgcolor="#f0e68b"|Adjourn for the day
|bgcolor="#f0e68b"|Adjourn for the day
|
|}

== '''Projects''' ==

Please use [http://wiki.na-mic.org/Wiki/index.php/Project_Week/Template this template] to create wiki pages for your project. Then link the page here with a list of key personnel.

===Huntingtons Disease===

===Traumatic Brain Injury===
* Validation and testing of 3D Slicer modules implementing the Utah TBI segmentation algorithm(Andrei Irimia, Micah Chambers, Bo Wang, Marcel Prastawa)

===Atrial Fibrillation===
* [[2013_Summer_Project_Week:CARMA_workflow_wizard|CARMA LA segmentation and enhancement quantification workflow wizard (Salma Bengali, Alan Morris, Brian Zenger, Josh Cates, Rob MacLeod)]]
* [[2013_Summer_Project_Week:CARMA_Documentataion|Cardiac MRI Toolkit Documentation Project (Salma Bengali, Alan Morris, Brian Zenger, Josh Cates, Rob MacLeod)]]
* [[2013_Summer_Project_Week:CARMA_Visualization|LA model visualization (Salma Bengali, Alan Morris, Josh Cates, Rob MacLeod)]]
* [[2013_Summer_Project_Week:CARMA_AutoLASeg|Automatic LA Segmentation with Graph Cuts Module (Salma Bengali, Alan Morris, Josh Cates, Gopal, Ross Whitaker, Rob MacLeod)]]

===Radiation Therapy===
* Landmark Registration (Steve, Nadya, Greg, Paolo, Erol)
* [[Slicer RT: DICOM-RT Export (Greg Sharp, Kevin Wang, Csaba Pinter)]]

===Device Integration with Slicer===
* Open-source electromagnetic trackers using OpenIGTLink (Peter Traneus Anderson, Tina Kapur, Sonia Pujol)

===IGT===
* Is Neurosurgical Rigid Registration really rigid? (Athena)

=== '''Informatics'''===
* [[2013_Summer_Project_Week:Biomedical_Image_Computing_Teaching_Modules|3D Slicer based Biomedical image computing teaching modules (A.Vilchis, J-C. Avila-Vilchis, S.Pujol)]]
* [[2013_Summer_Project_Week:Robot_Control| Robot Control (A.Vilchis, J-C. Avila-Vilchis, S.Pujol)]]

==='''Infrastructure'''===
* Annotations rewrite (Nicole Aucoin)
* Brain atlas optimisations demo (Marianna)
* Provenance
* Patient hierarchies (Csaba Pinter)
* Sample data (Steve Pieper, Jim Miller)
** content addressable data, in external data processing in Slicer, cmake file for external data, when write test can decorate the data file name with macro keywords saying it's external
* Plastimatch in NiPype (Paolo, Dave, Hans)
* Quality Assurance Module (Dave)
** look for commonalities/reuse of CompareVolumes
* iPython in Slicer (Hans, Jc, Dave)
* Optimizing start time of slicer (Jc)

== '''Background''' ==

We are pleased to announce the 17th PROJECT WEEK of hands-on research and development activity for applications in Neuroscience, Image-Guided Therapy and several additional areas of biomedical research that enable personalized medicine. Participants will engage in open source programming using the [[NA-MIC-Kit|NA-MIC Kit]], algorithm design, medical imaging sequence development, tracking experiments, and clinical application. The main goal of this event is to move forward the translational research deliverables of the sponsoring centers and their collaborators. Active and potential collaborators are encouraged and welcome to attend this event. This event will be set up to maximize informal interaction between participants. If you would like to learn more about this event, please [http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week click here to join our mailing list].

Active preparation begins on Thursday, April 25th at 3pm ET, with a kick-off teleconference. Invitations to this call will be sent to members of the sponsoring communities, their collaborators, past attendees of the event, as well as any parties who have expressed an interest in working with these centers. The main goal of the kick-off call is to get an idea of which groups/projects will be active at the upcoming event, and to ensure that there is sufficient coverage for all. Subsequent teleconferences will allow for more focused discussions on individual projects and allow the hosts to finalize the project teams, consolidate any common components, and identify topics that should be discussed in breakout sessions. In the final days leading upto the meeting, all project teams will be asked to fill in a template page on this wiki that describes the objectives and plan of their projects.

The event itself will start off with a short presentation by each project team, driven using their previously created description, and will help all participants get acquainted with others who are doing similar work. In the rest of the week, about half the time will be spent in breakout discussions on topics of common interest of subsets of the attendees, and the other half will be spent in project teams, doing hands-on project work. The hands-on activities will be done in 40-50 small teams of size 2-4, each with a mix of multi-disciplinary expertise. To facilitate this work, a large room at MIT will be setup with several tables, with internet and power access, and each computer software development based team will gather on a table with their individual laptops, connect to the internet to download their software and data, and be able to work on their projects. Teams working on projects that require the use of medical devices will proceed to Brigham and Women's Hospital and carry out their experiments there. On the last day of the event, a closing presentation session will be held in which each project team will present a summary of what they accomplished during the week.

This event is part of the translational research efforts of [http://www.na-mic.org NA-MIC], [http://www.ncigt.org NCIGT], [http://nac.spl.harvard.edu/ NAC], [http://catalyst.harvard.edu/home.html Harvard Catalyst], [http://www.cimit.org CIMIT], and OCAIRO. It is an expansion of the NA-MIC Summer Project Week that has been held annually since 2005. It will be held every summer at MIT and Brigham and Womens Hospital in Boston, typically during the last full week of June, and in Salt Lake City in the winter, typically during the second week of January.

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].

== '''Logistics''' ==

*'''Dates:''' June 17-21, 2013.
*'''Location:''' MIT.
*'''REGISTRATION:''' http://www.regonline.com/namic2013summerprojweek. Please note that as you proceed to the checkout portion of the registration process, RegOnline will offer you a chance to opt into a free trial of ACTIVEAdvantage -- click on "No thanks" in order to finish your Project Week registration.
*'''Registration Fee:''' $300.
*'''Hotel:''' Similar to previous years, no rooms have been blocked in a particular hotel.

== '''Preparation''' ==

# Please make sure that you are on the http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week mailing list
# The NA-MIC engineering team will be discussing projects in a their [http://wiki.na-mic.org/Wiki/index.php/Engineering:TCON_2013 weekly teleconferences]. Participants from the above mailing list will be invited to join to discuss their projects, so please make sure you are on it!
# By 3pm ET on Thursday May 8, all participants to add a one line title of their project to #Projects
# By 3pm ET on Thursday June 6, all project leads to complete [[Project_Week/Template|Complete a templated wiki page for your project]]. Please do not edit the template page itself, but create a new page for your project and cut-and-paste the text from this template page. If you have questions, please send an email to tkapur at bwh.harvard.edu.
# By 3pm on June 13: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Matt)
## Commit on each sandbox directory the code examples/snippets that represent our first guesses of appropriate methods. (Luis and Steve will help with this, as needed)
## Gather test images in any of the Data sharing resources we have (e.g. XNAT/MIDAS). These ones don't have to be many. At least three different cases, so we can get an idea of the modality-specific characteristics of these images. Put the IDs of these data sets on the wiki page. (the participants must do this.)
## Where possible, setup nightly tests on a separate Dashboard, where we will run the methods that we are experimenting with. The test should post result images and computation time. (Matt)
# Please note that by the time we get to the project event, we should be trying to close off a project milestone rather than starting to work on one...
# People doing Slicer related projects should come to project week with slicer built on your laptop.
## See the [http://www.slicer.org/slicerWiki/index.php/Documentation/4.0/Developers Developer Section of slicer.org] for information.
## Projects to develop extension modules should be built against the latest Slicer4 trunk.

== '''Registrants''' ==

Do not add your name to this list- it is maintained by the organizers based on your paid registration. ([http://www.regonline.com/Register/Checkin.aspx?EventID=1233699 Please click here to register.])

#Peter Anderson, retired, traneus@verizon.net
#Hans Johnson, Univ Iowa, hans-johnson@uiowa.edu
#Ron Kikinis, HMS, kikinis@bwh.harvard.edu
#Luis Murta, Univ Sao Paulo (Brazil), lomurta@gmail.com
#David Welch, Univ Iowa, david-welch@uiowa.edu

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T22:07:26Z

Cates: /* About the Workshop */

{| class="wikitable"
| colspan="3"|[[Image:ISMRM_2013_Logo.jpg]]
|-
| style="width:25%" |[[Image:NAMIC.jpg‎]]
| style="width:25%" |[[Image:CARMA_LOGO.jpg|300px]]
|style="width:25%" |[[Image:UofULogo.jpg]]
|}

== About the Workshop ==
The Slicer demo session will be held as part of the Cardiac Study Group meeting at the [http://www.ismrm.org/13/ The International Society for Magnetic Resonance in Medicine (ISMRM) Annual Meeting ]. The goal is to provide participants with an overview of the software available for segmentation and postprocessing of cardiac LGE-MRI, specifically for the study of cardiac tissue in the left atrium. The session will include a brief presentation on the imaging itself, followed by considerations for image processing and a tutorial using the CARMA DBP Slicer Extension modules to segment and process LGE-MRI.

*'''About Slicer and the National Alliance for Medical Image Computing''': Over the past eight years, the National Alliance for Medical Image Computing (NA-MIC), one of the seven National Centers for Biomedical Computing (NCBC), part of the NIH Roadmap for medical research, has focused its efforts on the transfer of the latest advances in biomedical image analysis to the clinical and scientific community, through the development and dissemination of open source tools. As part of the NA-MIC toolkit, the [http://www.slicer.org/ 3D Slicer] open-source software has been developed as a technology delivery platform that is both easy to use for clinical researchers, and easy to extend for software developers.

*'''About CARMA''': The mission of the Comprehensive Arrhythmia Research & Management Center is to provide worldwide pioneering leadership in advancing research and clinical treatments for cardiac arrhythmias, particularly atrial fibrillation, a disease that causes both short and long term impairment in the quality of life for millions worldwide. The CARMA Center is advancing research to better understand this disease and develop new medical techniques and interventions that greatly improve the lives of patients.

*'''About UCAIR''': UCAIR, or the Utah Center for Advanced Imaging Research, is the research division of the Department of Radiology at the University of Utah. We are a group of medical physicists, engineers, radiologists, students, associates and fellows all working to design and develop better imaging devices, technology and applications. The Center provides the expertise and the infrastructure of a world-class imaging resource for the campus and the nation. Many of our research projects are collaborative and multidisciplinary because imaging technology is a powerful tool for both medical and biological research.

== Dates and Location: ==
*Date: April 22, 2013
*Location: Salt Lake City, Utah

== Training Faculty and Organizers ==
This workshop is a joint event of the Utah Center for Advanced Imaging Research (UCAIR) and the Comprehensive Arrhythmia Research and Management (CARMA) Center at the University of Utah.

'''UCAIR'''
* Ed DiBella, Ph.D., UCAIR, University of Utah, Salt Lake City, USA
* Eugene Kholmovski, Ph.D., UCAIR, University of Utah, Salt Lake City, USA

'''CARMA'''
* Joshua Cates, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Rob MacLeod, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Salma Bengali, CARMA, University of Utah, Salt Lake City, USA
* Nathan Burgon, CARMA, University of Utah, Salt Lake City, USA

== ISMRM 2013 Cardiac Working Group Meeting ==
At the Salt Palace, Salt Lake City, Utah

* 16:30 - Welcome, admin/business issues
* 16:40 - 20 minute slide presentation on LA LGE postprocessing. Speakers Eugene Kholmovski and Josh Cates.
* 17:00 - Live demonstrations of LA Segmentation and Postprocessing using 3D Slicer and other tools
* 17:40 - Refreshment break
* 17:50 - 20 minute slide presentation on technical details of processing 4D flow datasets. Speaker Michael Markl.
* 18:10 - Live demonstrations of 4D flow processing.
* 18:30 - Meeting ends. Informal discussion afterwards

== Registration ==
To sign-up for the workshop, please visit the [http://www.ismrm.org/13/ ISMRM 2013] website.

== Preparation for the Workshop ==
No preparation is necessary for this workshop.

Back to [http://www.na-mic.org/Wiki/index.php/Events NA-MIC Events]

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T21:34:20Z

Cates: /* About the Workshop */

{| class="wikitable"
| colspan="3"|[[Image:ISMRM_2013_Logo.jpg]]
|-
| style="width:25%" |[[Image:NAMIC.jpg‎]]
| style="width:25%" |[[Image:CARMA_LOGO.jpg|300px]]
|style="width:25%" |[[Image:UofULogo.jpg]]
|}

== About the Workshop ==
The Slicer demo session will be held as part of the [http://www.ismrm.org/13/ The International Society for Magnetic Resonance in Medicine (ISMRM) Annual Meeting ]. The goal is to provide participants with an overview of the software available for segmentation and postprocessing of cardiac LGE-MRI, specifically for the study of cardiac tissue in the left atrium. The session will include a brief presentation on the imaging itself, followed by considerations for image processing and a tutorial using the CARMA DBP Slicer Extension modules to segment and process LGE-MRI.

*'''About Slicer and the National Alliance for Medical Image Computing''': Over the past eight years, the National Alliance for Medical Image Computing (NA-MIC), one of the seven National Centers for Biomedical Computing (NCBC), part of the NIH Roadmap for medical research, has focused its efforts on the transfer of the latest advances in biomedical image analysis to the clinical and scientific community, through the development and dissemination of open source tools. As part of the NA-MIC toolkit, the [http://www.slicer.org/ 3D Slicer] open-source software has been developed as a technology delivery platform that is both easy to use for clinical researchers, and easy to extend for software developers.

*'''About CARMA''': The mission of the Comprehensive Arrhythmia Research & Management Center is to provide worldwide pioneering leadership in advancing research and clinical treatments for cardiac arrhythmias, particularly atrial fibrillation, a disease that causes both short and long term impairment in the quality of life for millions worldwide. The CARMA Center is advancing research to better understand this disease and develop new medical techniques and interventions that greatly improve the lives of patients.

*'''About UCAIR''': UCAIR, or the Utah Center for Advanced Imaging Research, is the research division of the Department of Radiology at the University of Utah. We are a group of medical physicists, engineers, radiologists, students, associates and fellows all working to design and develop better imaging devices, technology and applications. The Center provides the expertise and the infrastructure of a world-class imaging resource for the campus and the nation. Many of our research projects are collaborative and multidisciplinary because imaging technology is a powerful tool for both medical and biological research.

== Dates and Location: ==
*Date: April 22, 2013
*Location: Salt Lake City, Utah

== Training Faculty and Organizers ==
This workshop is a joint event of the Utah Center for Advanced Imaging Research (UCAIR) and the Comprehensive Arrhythmia Research and Management (CARMA) Center at the University of Utah.

'''UCAIR'''
* Ed DiBella, Ph.D., UCAIR, University of Utah, Salt Lake City, USA
* Eugene Kholmovski, Ph.D., UCAIR, University of Utah, Salt Lake City, USA

'''CARMA'''
* Joshua Cates, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Rob MacLeod, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Salma Bengali, CARMA, University of Utah, Salt Lake City, USA
* Nathan Burgon, CARMA, University of Utah, Salt Lake City, USA

== ISMRM 2013 Cardiac Working Group Meeting ==
At the Salt Palace, Salt Lake City, Utah

* 16:30 - Welcome, admin/business issues
* 16:40 - 20 minute slide presentation on LA LGE postprocessing. Speakers Eugene Kholmovski and Josh Cates.
* 17:00 - Live demonstrations of LA Segmentation and Postprocessing using 3D Slicer and other tools
* 17:40 - Refreshment break
* 17:50 - 20 minute slide presentation on technical details of processing 4D flow datasets. Speaker Michael Markl.
* 18:10 - Live demonstrations of 4D flow processing.
* 18:30 - Meeting ends. Informal discussion afterwards

== Registration ==
To sign-up for the workshop, please visit the [http://www.ismrm.org/13/ ISMRM 2013] website.

== Preparation for the Workshop ==
No preparation is necessary for this workshop.

Back to [http://www.na-mic.org/Wiki/index.php/Events NA-MIC Events]

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T21:33:21Z

Cates:

{| class="wikitable"
| colspan="3"|[[Image:ISMRM_2013_Logo.jpg]]
|-
| style="width:25%" |[[Image:NAMIC.jpg‎]]
| style="width:25%" |[[Image:CARMA_LOGO.jpg|300px]]
|style="width:25%" |[[Image:UofULogo.jpg]]
|}

== About the Workshop ==
The demo session will be held as part of the [http://www.ismrm.org/13/ The International Society for Magnetic Resonance in Medicine (ISMRM) Annual Meeting ]. The goal is to provide participants with an overview of the software available for segmentation and postprocessing of cardiac LGE-MRI, specifically for the study of cardiac tissue in the left atrium. The session will include a brief presentation on the imaging itself, followed by considerations for image processing and a tutorial using the CARMA DBP Slicer Extension modules to segment and process LGE-MRI.

*'''About Slicer and the National Alliance for Medical Image Computing''': Over the past eight years, the National Alliance for Medical Image Computing (NA-MIC), one of the seven National Centers for Biomedical Computing (NCBC), part of the NIH Roadmap for medical research, has focused its efforts on the transfer of the latest advances in biomedical image analysis to the clinical and scientific community, through the development and dissemination of open source tools. As part of the NA-MIC toolkit, the [http://www.slicer.org/ 3D Slicer] open-source software has been developed as a technology delivery platform that is both easy to use for clinical researchers, and easy to extend for software developers.

*'''About CARMA''': The mission of the Comprehensive Arrhythmia Research & Management Center is to provide worldwide pioneering leadership in advancing research and clinical treatments for cardiac arrhythmias, particularly atrial fibrillation, a disease that causes both short and long term impairment in the quality of life for millions worldwide. The CARMA Center is advancing research to better understand this disease and develop new medical techniques and interventions that greatly improve the lives of patients.

*'''About UCAIR''': UCAIR, or the Utah Center for Advanced Imaging Research, is the research division of the Department of Radiology at the University of Utah. We are a group of medical physicists, engineers, radiologists, students, associates and fellows all working to design and develop better imaging devices, technology and applications. The Center provides the expertise and the infrastructure of a world-class imaging resource for the campus and the nation. Many of our research projects are collaborative and multidisciplinary because imaging technology is a powerful tool for both medical and biological research.

== Dates and Location: ==
*Date: April 22, 2013
*Location: Salt Lake City, Utah

== Training Faculty and Organizers ==
This workshop is a joint event of the Utah Center for Advanced Imaging Research (UCAIR) and the Comprehensive Arrhythmia Research and Management (CARMA) Center at the University of Utah.

'''UCAIR'''
* Ed DiBella, Ph.D., UCAIR, University of Utah, Salt Lake City, USA
* Eugene Kholmovski, Ph.D., UCAIR, University of Utah, Salt Lake City, USA

'''CARMA'''
* Joshua Cates, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Rob MacLeod, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Salma Bengali, CARMA, University of Utah, Salt Lake City, USA
* Nathan Burgon, CARMA, University of Utah, Salt Lake City, USA

== ISMRM 2013 Cardiac Working Group Meeting ==
At the Salt Palace, Salt Lake City, Utah

* 16:30 - Welcome, admin/business issues
* 16:40 - 20 minute slide presentation on LA LGE postprocessing. Speakers Eugene Kholmovski and Josh Cates.
* 17:00 - Live demonstrations of LA Segmentation and Postprocessing using 3D Slicer and other tools
* 17:40 - Refreshment break
* 17:50 - 20 minute slide presentation on technical details of processing 4D flow datasets. Speaker Michael Markl.
* 18:10 - Live demonstrations of 4D flow processing.
* 18:30 - Meeting ends. Informal discussion afterwards

== Registration ==
To sign-up for the workshop, please visit the [http://www.ismrm.org/13/ ISMRM 2013] website.

== Preparation for the Workshop ==
No preparation is necessary for this workshop.

Back to [http://www.na-mic.org/Wiki/index.php/Events NA-MIC Events]

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T21:31:56Z

Cates:

{| class="wikitable"
| colspan="3"|[[Image:ISMRM_2013_Logo.jpg]]
|-
| style="width:25%" |[[Image:NAMIC.jpg‎]]
| style="width:25%" |[[Image:CARMA_LOGO.jpg|300px]]
|style="width:25%" |[[Image:UofULogo.jpg]]
|}

== About the Workshop ==
The demo session will be held as part of the [http://www.ismrm.org/13/ The International Society for Magnetic Resonance in Medicine (ISMRM) Annual Meeting ]. The goal is to provide participants with an overview of the software available for segmentation and postprocessing of cardiac LGE-MRI, specifically for the study of cardiac tissue in the left atrium. The session will include a brief presentation on the imaging itself, followed by considerations for image processing and a tutorial using the CARMA DBP Slicer Extension modules to segment and process LGE-MRI.

*'''About Slicer and the National Alliance for Medical Image Computing''': Over the past eight years, the National Alliance for Medical Image Computing (NA-MIC), one of the seven National Centers for Biomedical Computing (NCBC), part of the NIH Roadmap for medical research, has focused its efforts on the transfer of the latest advances in biomedical image analysis to the clinical and scientific community, through the development and dissemination of open source tools. As part of the NA-MIC toolkit, the [http://www.slicer.org/ 3D Slicer] open-source software has been developed as a technology delivery platform that is both easy to use for clinical researchers, and easy to extend for software developers.

*'''About CARMA''': The mission of the Comprehensive Arrhythmia Research & Management Center is to provide worldwide pioneering leadership in advancing research and clinical treatments for cardiac arrhythmias, particularly atrial fibrillation, a disease that causes both short and long term impairment in the quality of life for millions worldwide. The CARMA Center is advancing research to better understand this disease and develop new medical techniques and interventions that greatly improve the lives of patients.

== Dates and Location: ==
*Date: April 22, 2013
*Location: Salt Lake City, Utah

== Training Faculty and Organizers ==
This workshop is a joint event of the Utah Center for Advanced Imaging Research (UCAIR) and the Comprehensive Arrhythmia Research and Management (CARMA) Center at the University of Utah.

'''UCAIR'''
* Ed DiBella, Ph.D., UCAIR, University of Utah, Salt Lake City, USA
* Eugene Kholmovski, Ph.D., UCAIR, University of Utah, Salt Lake City, USA

'''CARMA'''
* Joshua Cates, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Rob MacLeod, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Salma Bengali, CARMA, University of Utah, Salt Lake City, USA
* Nathan Burgon, CARMA, University of Utah, Salt Lake City, USA

== ISMRM 2013 Cardiac Working Group Meeting ==
At the Salt Palace, Salt Lake City, Utah

* 16:30 - Welcome, admin/business issues
* 16:40 - 20 minute slide presentation on LA LGE postprocessing. Speakers Eugene Kholmovski and Josh Cates.
* 17:00 - Live demonstrations of LA Segmentation and Postprocessing using 3D Slicer and other tools
* 17:40 - Refreshment break
* 17:50 - 20 minute slide presentation on technical details of processing 4D flow datasets. Speaker Michael Markl.
* 18:10 - Live demonstrations of 4D flow processing.
* 18:30 - Meeting ends. Informal discussion afterwards

== Registration ==
To sign-up for the workshop, please visit the [http://www.ismrm.org/13/ ISMRM 2013] website.

== Preparation for the Workshop ==
No preparation is necessary for this workshop.

Back to [http://www.na-mic.org/Wiki/index.php/Events NA-MIC Events]

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T21:31:19Z

Cates:

{| class="wikitable"
| colspan="3"|[[Image:ISMRM_2013_Logo.jpg]]
|-
| style="width:25%" |[[Image:NAMIC.jpg‎]]
| style="width:25%" |[[Image:CARMA_LOGO.jpg|300px]]
|style="width:25%" |[[Image:UofULogo.jpg]]
|}

== About the Workshop ==
The demo session will be held as part of the [http://www.ismrm.org/13/ The International Society for Magnetic Resonance in Medicine (ISMRM) Annual Meeting ]. The goal is to provide participants with an overview of the software available for segmentation and postprocessing of cardiac LGE-MRI, specifically for the study of cardiac tissue in the left atrium. The session will include a brief presentation on the imaging itself, followed by considerations for image processing and a tutorial using the CARMA DBP Slicer Extension modules to segment and process LGE-MRI.

*'''About Slicer and the National Alliance for Medical Image Computing''': Over the past eight years, the National Alliance for Medical Image Computing (NA-MIC), one of the seven National Centers for Biomedical Computing (NCBC), part of the NIH Roadmap for medical research, has focused its efforts on the transfer of the latest advances in biomedical image analysis to the clinical and scientific community, through the development and dissemination of open source tools. As part of the NA-MIC toolkit, the [http://www.slicer.org/ 3D Slicer] open-source software has been developed as a technology delivery platform that is both easy to use for clinical researchers, and easy to extend for software developers.

*'''About CARMA'''
The mission of the Comprehensive Arrhythmia Research & Management Center is to provide worldwide pioneering leadership in advancing research and clinical treatments for cardiac arrhythmias, particularly atrial fibrillation, a disease that causes both short and long term impairment in the quality of life for millions worldwide. The CARMA Center is advancing research to better understand this disease and develop new medical techniques and interventions that greatly improve the lives of patients.

== Dates and Location: ==
*Date: April 22, 2013
*Location: Salt Lake City, Utah

== Training Faculty and Organizers ==
This workshop is a joint event of the Utah Center for Advanced Imaging Research (UCAIR) and the Comprehensive Arrhythmia Research and Management (CARMA) Center at the University of Utah.

'''UCAIR'''
* Ed DiBella, Ph.D., UCAIR, University of Utah, Salt Lake City, USA
* Eugene Kholmovski, Ph.D., UCAIR, University of Utah, Salt Lake City, USA

'''CARMA'''
* Joshua Cates, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Rob MacLeod, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Salma Bengali, CARMA, University of Utah, Salt Lake City, USA
* Nathan Burgon, CARMA, University of Utah, Salt Lake City, USA

== ISMRM 2013 Cardiac Working Group Meeting ==
At the Salt Palace, Salt Lake City, Utah

* 16:30 - Welcome, admin/business issues
* 16:40 - 20 minute slide presentation on LA LGE postprocessing. Speakers Eugene Kholmovski and Josh Cates.
* 17:00 - Live demonstrations of LA Segmentation and Postprocessing using 3D Slicer and other tools
* 17:40 - Refreshment break
* 17:50 - 20 minute slide presentation on technical details of processing 4D flow datasets. Speaker Michael Markl.
* 18:10 - Live demonstrations of 4D flow processing.
* 18:30 - Meeting ends. Informal discussion afterwards

== Registration ==
To sign-up for the workshop, please visit the [http://www.ismrm.org/13/ ISMRM 2013] website.

== Preparation for the Workshop ==
No preparation is necessary for this workshop.

Back to [http://www.na-mic.org/Wiki/index.php/Events NA-MIC Events]

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T21:28:41Z

Cates:

File:ISMRM 2013 Logo.jpg

2013-04-10T21:28:14Z

Cates:

File:CARMA LOGO.jpg

2013-04-10T21:22:12Z

Cates:

File:UofULogo.jpg

2013-04-10T21:19:57Z

Cates:

2013 ISMRM CardiacStudyGroup CARMA

2013-04-10T18:19:53Z

Cates: Created page with '{| class="wikitable" | colspan="3"|Image:ISMRM_LOGO.png |- | style="width:25%" |Image:NAMIC.jpg‎ | style="width:25%" |Image:CARMA_LOGO.gif‎ |style="width:25%" |[[…'

{| class="wikitable"
| colspan="3"|[[Image:ISMRM_LOGO.png]]
|-
| style="width:25%" |[[Image:NAMIC.jpg‎]]
| style="width:25%" |[[Image:CARMA_LOGO.gif‎]]
|style="width:25%" |[[Image:UofULogo.gif]]
|}

== About the Workshop ==
*'''About Slicer and the National Alliance for Medical Image Computing''': Over the past eight years, the National Alliance for Medical Image Computing (NA-MIC), one of the seven National Centers for Biomedical Computing (NCBC), part of the NIH Roadmap for medical research, has focused its efforts on the transfer of the latest advances in biomedical image analysis to the clinical and scientific community, through the development and dissemination of open source tools. As part of the NA-MIC toolkit, the [http://www.slicer.org/ 3D Slicer] open-source software has been developed as a technology delivery platform that is both easy to use for clinical researchers, and easy to extend for software developers.

*'''About CARMA'''

The demo session will be held as part of the [http://www.ismrm.org/13/ The International Society for Magnetic Resonance in Medicine (ISMRM) Annual Meeting ]

== Dates and Location: ==
*Date: April 22, 2013
*Location: Salt Lake City, Utah

== Training Faculty and Organizers ==
This workshop is a joint event of the Utah Center for Advanced Imaging Research (UCAIR) and the Comprehensive Arrhythmia Research and Management (CARMA) Center at the University of Utah.

'''UCAIR'''
* Ed DiBella, Ph.D., UCAIR, University of Utah, Salt Lake City, USA
* Eugene Kholmovski, Ph.D., UCAIR, University of Utah, Salt Lake City, USA

'''CARMA'''
* Joshua Cates, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Rob MacLeod, Ph.D., CARMA and SCI Institute, University of Utah, Salt Lake City, USA
* Salma Bengali, CARMA, University of Utah, Salt Lake City, USA
* Nathan Burgon, CARMA, University of Utah, Salt Lake City, USA

== ISMRM 2013 Cardiac Working Group Meeting ==
At the Salt Palace, Salt Lake City, Utah

* 16:30 - Welcome, admin/business issues
* 16:40 - 20 minute slide presentation on LA LGE postprocessing. Speakers Eugene Kholmovski and Josh Cates.
* 17:00 - Live demonstrations of LA Segmentation and Postprocessing using 3D Slicer and other tools
* 17:40 - Refreshment break
* 17:50 - 20 minute slide presentation on technical details of processing 4D flow datasets. Speaker Michael Markl.
* 18:10 - Live demonstrations of 4D flow processing.
* 18:30 - Meeting ends. Informal discussion afterwards

== Registration ==
To sign-up for the workshop, please visit the [http://www.ismrm.org/13/ ISMRM 2013] website.

== Preparation for the Workshop ==
No preparation is necessary for this workshop.

Back to [http://www.na-mic.org/Wiki/index.php/Events NA-MIC Events]

Events

2013-04-10T14:45:55Z

Cates: /* 2013 */

__TOC__
== Introduction ==
{| border="00" cellpadding="8" cellspacing="0"
|-
| rowspan="2"| NA-MIC organizes a variety of events. The engineering core holds a weekly telephone conference. Workshops address specific research focus areas. Training events aim at training NA-MIC participants and outsiders in NA-MIC technologies. Project weeks are intended for making progress in a variety of projects. The majority of NA-MIC events are hands-on and open to collaborators and interested scientists.<br>
If you want to get going with Slicer, go to the list of past events and look for the most recent one-day workshop or tutorial.
| style="background: #ebeced" colspan="2" align="center"| <b>Example of a Training Event</b>
|-
| style="background: #ebeced"| [[Image:RSNA2011.jpg|250px]]
| style="background: #ebeced"| The RSNA 2011 training workshop in full swing. For more information about the workshop, please click [http://www.na-mic.org/Wiki/index.php/RSNA_2011 here].
|}

== [[TCON:Main|'''Telephone Conferences''']] ==
== Upcoming Events ==

== 2013 ==
*'''April 10-11:''' [http://www.na-mic.org/Wiki/index.php/Iwate_2013_Training Slicer Ultrasound Workshop], Iwate, Japan
*'''April 22:''' [[2013_ISMRM_CardiacStudyGroup_CARMA|ISMRM 2013 Cardiac Study Group Tutorial]]: Slicer for segmentation and enhancement quantification in cardiac LGE-MRI. Salt Lake City, Utah.
*'''May 20-24:''' [http://www.commontk.org/index.php/CTK-Hackfest-May-2013 CTK Hackfest], Kingston, Ontario, Canada
*'''May 24:''' [http://www.kitware.com/products/protraining.php?course=05/24/2013 3D Slicer: Visualize and Analyze your datasets]. Kitware Training Course, Lyon, France.
*'''June 17-21:''' [[2013_Summer_Project_Week|'''Summer Project Week at MIT]]'''
*'''June 17-21:''' [[2013_Tutorial_Contest|'''Summer 2013 Tutorial Contest''']]
*'''June 26-29:''' [[CARS2013| 3D Slicer hands-on workshop on Image-Guided Therapy and joint Slicer/CTK/MITK workshop, CARS 2013, Heidelberg, Germany]]
*'''September 11''': [[WFNS2013| Invited lecture at the 15th WFNS World Congress of Neurosurgery, Seoul, Korea]]
*'''September 22''': [http://dti-challenge.org MICCAI 2013 DTI Tractography Challenge on Peritumoral White Matter Anatomy for Neurosurgical Decision-Making]
*'''September 26''': [http://www.dkfz.de/en/mbi/ctk-miccai2013/index.html MICCAI 2013 CTK Tutorial]

== Standing Events ==
* [[TCON:Main|A list of all upcoming and past teleconferences is available here]]
* [[Engineering:Programming_Events|Hands on Project Events]]
* [http://www.slicer.org/slicerWiki/index.php/Slicer:Developer_Meetings Slicer developer meetings are here]
* [[Event:Journal Club at BWH|Journal Club at BWH]]

== Past Events ==
==2013==
*'''April 8:''' [[Imaging_in_Neuroscience| Imaging in Neuroscience Course]], Boston
*'''April 9:''' [http://www.na-mic.org/Wiki/index.php/Tokyo_2013_Training Slicer Workshop], Tokyo, Japan
*March 21-23: [http://www.ncigt.org/pages/IGT_Workshop_2013 6th NCIGT and NIH Image Guided Therapy Workshop] in Crystal City, VA
*March 11: [[CIR_visit_Vienna_Medical_Center | Slicer lecture at the Computational Image Analysis and Radiology laboratory, Medical University, Vienna]]
*March 11: [[SlicerRT_workshop | SlicerRT workshop, Medical University, Vienna]]
*March 8: [http://www.na-mic.org/Wiki/index.php/Autoseg_2013 Automatic Segmentation Algorithm Workshop, Boston, MA, USA]
*March 7-11: [http://www.na-mic.org/Wiki/index.php/ECR_2013 European Congress of Radiology, Vienna, Austria]
*March 4: [[2013-03-4- TWMU_Visit| Delegates from Research Administration Office at Tokyo Women's Medical University visits SNR Lab/NCIGT and AMIGO]]
*February 28-March 5: [[2013_Dr_Chen_Visit | Visit of Dr. Xiaolei Chen, PLA General Hospital, Beijing at the SPL]]
----
*February 22: [[2013-02-22 Dr. Takahashi's Visit to SNR Lab/NCIGT and AMIGO|Dr. Takahashi's Visit to SNR Lab/NCIGT and AMIGO]]
*February 14: [[2013-02-14-Slicer_Demo_at_Memorial_Sloan_Kettering_Cancer_Center | Demo the Slicer segmentation and registration tools at the Memorial Sloan Kettering Cancer Center]]
*February 14: [[2013-02-14-Korean_Surgical_Robot_Research_Team_Visit | Surgical Navigation and Robotics Laboratory hosts a robotic surgery research group from Korea]]
*February 9-14: [http://www.na-mic.org/Wiki/index.php/SPIE_2013_DTI_Workshop SPIE 2013 Diffusion Tensor Imaging Course, Orlando, FL]
*February 7: [[2013-02-07-MGH_Slicer_user_meeting | Slicer user/developer meeting with the MGH user group]]
----
*January 31: [[GolbyLabMeeting_DTIChallenge | MICCAI DTI Challenge Presentation at Golby Lab Meeting, Brigham and Women's Hospital]]
*January 28: [http://www.assembla.com/wiki/show/slicerrt/20130128_slicer_matlab_personal_cloud_meeting Slicer Matlab personal cloud meeting]
*January 7-11: [[AHM_2013|'''AHM, EAB, Winter Project Week in Salt Lake City]]'''

==2012==
*December 10: [[ PNL_2012 | PNL Slicer4 Training Workshop]]
*December 3: [[HST_2012 | Harvard-MIT Division of Health Science and Technology - Diffusion Tensor Imaging Course]]
----
*November 25-30: [[RSNA_2012 | 98th Annual Meeting of the Radiological Society of North America (RSNA 2012), Chicago IL]]
*November 14: [[CMF_Workshop_Cleveland_2012| 3D Cranio Maxillo Facial workshop, CWRU Cleveland, OH]]
*November 8-9: [http://meetings.nigms.nih.gov/index.cfm?event=general&ID=15208 NCBC showcase event in Washington DC]: [[media:NA-MIC-Overview-2012-11.pdf|PDF of the overview slides]]
----
* October 8: [[Niguarda_Ospedale_Visit| Invited visit to the Epilepsy and Parkinson Surgery Centre "Claudio Munari" Ospedale Niguarda "Ca' Granda", Milan, Italy]]
* October 1: [[DTI_Tractography_Challenge_MICCAI_2012| DTI Tractography Challenge, MICCAI 2012, Nice, France]]
* October 1: [http://www.sci.utah.edu/stia2012-home.html 2nd International MICCAI Workshop on Spatiotemporal Image Analysis for Longitudinal and Time-Series Image Data (STIA'12), MICCAI 2012, Nice, France]
----
* September 25-26: [[Pieper-MeVis-2012-09| Steve Pieper visited MeVis]]
* September 20: [[DrShekhar_Visit_Sep_2012|Dr. Raj Shekhar's visit to NCIGT]]
* September 12: [[Universidad Autonoma del Estado de Mexico Symposium | 3DSlicer invited lecture at the First Symposium on Medical Bioengineering, Universidad Autónoma del Estado de México, Mexico City, Mexico]]
* September 10:''' [[HST_583_2012| Harvard-MIT Division of Science Health and Technology HST.583 - Neuroimage Analysis Lab]]
----
* August 29: [[BU_Slicer4_Training_Session| BU Slicer4 Training session]]
* August 20: [[Slicer4.2Planning|Slicer 4.2 Planning meeting]]
* August 20-21: [[Core 1 Retreat 2012|Core 1 Retreat 2012 in Park City, UT]]
----
* July 30: [[AAPM_2012 | 3D Slicer User Group at AAPM, Charlotte, NC]]
* July 9-13: [http://www.commontk.org/index.php/CTK-Hackfest-Jul-2012 CTK Hackfest, Boston, USA]
----
* June 30: [[CARS_2012 | NA-MIC IGT Workshop, CARS 2012]]
* June 18-22: [[2012_Summer_Project_Week|'''Summer Project Week at MIT''']]; [[2012_Tutorial_Contest| Summer 2012 Tutorial Contest]]
----
* May 21-22: [[Madrid-May-21-2012-Slicer-Workshop| Slicer workshop in Madrid, ES]]
* May 16: [http://www.ias.uwa.edu.au/lectures/kikinis| Public lecture, UWA, Perth, AU]
* May 14: [http://www.ias.uwa.edu.au/masterclass/kikinis Masterclass, UWA, Perth, AU]
* May 2: [http://www.hisa.org.au/events/event_details.asp?id=224112 Slicer workshop at St Vincent's Hospital in Fitzroy, Melbourne, AU]
----
* April 30-May 1: [http://www.cs.ucl.ac.uk/opensource_mia_ws_2012/ Slicer presentation at the International Symposium on Biomedical Imaging (ISBI 2012), Barcelona, Spain]
* April 26: [http://www.hisa.org.au/events/event_details.asp?id=224111 Slicer workshop at St. Vincent Hospital in Sydney, AU]
* April 5: [[NEU-Medical-Physics-Seminar| Northeastern University Medical Physics Seminar, Gregory Sharp, Nobuhiko Hata]]
----
* March 20-21: [[Iowa-March-20-2012-Slicer-Workshop| Slicer workshop in Iowa]]
* March 16: [[Particle_UNC_Utah| Particle training seminar, UNC Chapel Hill, NC]]
* March 5-6: Slicer booth presentation at the annual [https://wiki.nci.nih.gov/display/CIP/QIN Quantitative Imaging Network] face-to-face meeting; NCI, Washington DC
----
* February 27: [[Slicer-4.1| Plans for Slicer 4.1]]
* February 29: [[Chapel-Hill-February-29-2012-Slicer-Talk| Slicer talk at UNC]]
* February 14: [[TWMU_Medtronics_OpenIGTLink| TWMU Open IGT Link - Stealth station Project, Kick-off, Tokyo, Japan]]
* February 5: [[SPIE_2012_DTI_Workshop| SPIE 2012 DTI Course, San Diego, CA]]
----
* January 9-13: [[AHM_2012|'''AHM, EAB, Winter Project Week in Salt Lake City''']]

== 2011 ==
*November 27-December 2: [[RSNA_2011 | 97th Annual Meeting of the Radiological Society of North America (RSNA 2011), Chicago IL ]]
*November 14-18: [http://www.commontk.org/index.php/CTK-Hackfest-Nov-2011 CTK Hackfest, Sophia Antipolis, France]
*November 11: [[SFN2011 Diffusion_Tensor_Imaging_Analysis Workshop |White Matter Exploration with Diffusion Tensor Imaging: Fundamentals and Perspectives - SFN 2011 Workshop, Washington DC]]
*November 9: [[CMF_Workshop_Cleveland| 3D Cranio Maxillo Facial workshop, CWRU Cleveland, OH]]
*November 3: [[2011_Slicer4-PreRSNAHackFest|Slicer4 PreRSNA Hackfest, Google hangouts]]
*November 2: [[BWH_Resident_Fair| 3DSlicer exhibit at the BWH Resident Fair, Boston, MA]]
----
*October 20: [[2011_Slicer4-Documentation-Sprint|Slicer4 Documentation Sprint]]
*October 14-15: [[2011_Algorithms_Retreat|Algorithm Core Retreat in New England]]
*October 12-13: [http://www.ncigt.org/pages/IGT_Workshop_2011 NCIGT Workshop in DC]
----
*September 28: [http://wiki.na-mic.org/Wiki/index.php/Event:Journal_Club_at_BWH Journal Club talk: Seyed-Ahmad Ahmadi]
*September 26-28: [[Events:2011_Hungary_Slicer_Training|Programming and End-User Training in Szeged Hungary]]
*September 18: '''[http://www.na-mic.org/Wiki/index.php/Events:_DTI_Tractography_Challenge_MICCAI_2011 DTI Tractography for Neurosurgical Planning: A Grand Challenge - MICCAI 2011 Workshop, Toronto, Canada]'''
----
*August 4: [[Events:UBC_3D_Slicer_workshop_August_2011|UBC 3D Slicer workshop August 2011]]
*August 2: [[Events:2011-08-02-AAPM-Slicer-Users-Group-Meeting|3D Slicer users group meeting at AAPM annual meeting in Vancouver BC]]
----
*July 19-21: [[Events:Slicer4-Review-07-2011 | Slicer 4 Review and Programming Sprint, 1249 Boylston St., Boston, MA]]
----
*June 26-30: [[Events:3DSlicer_Booth_OHBM_2011 | 3DSlicer Booth, OHBM 2011, Quebec City, Canada]]
*June 20-24: [[2011_Summer_Project_Week|'''Summer Project Week at MIT''']]
*June 15: [[Events:2011-06-15-Robarts-Slicer-Workshop|Slicer Workshop at the Biomedical Imaging Research Centre at the University of Western Ontario]]
*June 13: [http://www.na-mic.org/Wiki/index.php/Summer_2011_Tutorial_Contest Summer 2011 Tutorial Contest] Submission dead-line.
*June 7: [[Events:2011-06-07-UCSF-Diffusion-Imaging-Workshop|UCSF Diffusion Imaging Workshop, San Francisco]]
----
*May 5: [[Events:Computational_Methods_for_Radiation_Oncology|Computational Methods for Radiation Oncology, Boston]]
----
*April 27: [[Events:Slicer-Hands-On-Hiroshima-2011|Slicer and OpenIGTLink Hands-on Training, Hiroshima, Japan]]
*April 22: [[Event:2011-04-UtahDBP-Training|Slicer Hands-on Training For The Utah Afib Team]]
*April 12: [[Event:2011-04-DiMaioTalk|Talk by Simon DiMaio "da Vinci and Beyond"]]
*April 5: [http://www.na-mic.org/Wiki/index.php/Events:_Johns_Hopkins_University_Seminar_April_2011 Training Workshop at Johns Hopkins University]
----
*March 16-18: [http://vizbi.org VIZBI 2011] in Cambridge, MA includes NAMIC-affiliated speakers and VTK tutorials.
*March 15-16: [http://catalyst.harvard.edu/services/ittm/module1.html Harvard Catalyst Biomarkers and Imaging in Drug Development course] includes [[media:Pieper-Image Processing Strategies.pptx|a presentation on image processing approaches]] including NA-MIC and 3D Slicer.
*March 11: [[CTSC:Slicer_handson.021810| 3D Slicer Quantitative Medical Image Data Visualization Hands-On Workshop, Countway room 403, (12-1pm)]]
*March 4: New [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues#DONE:_Issues_fixed_for_inclusion_in_Slicer_3.6.3_--_included_in_release_builds_of_March_4.2C_2011 Slicer3.6.3 Patch Release]
----
*February 19-23: [[Event:2011_Registration_Retreat|Registration Retreat]]
*February 18: [[CTSC:Slicer_handson.021810| 3D Slicer Quantitative Medical Image Data Visualization Hands-On Workshop]] Harvard Countway Library room 403, (12-1pm)
*February 7-11: [http://www.commontk.org/index.php/CTK-Hackfest-Feb-2011 CTK Hackfest in Chapel Hill, NC]
*February 4: [[Media:Fedorov-MGH-4Feb2011.pdf|Presentation of 3D Slicer for the MGH tumor measurement group]]
----
*January 10-14: '''[[AHM_2011|AHM, EAB, Winter Project Week in Salt Lake City]]'''

== 2010 ==
*December 6-7: [[Events:Dundee-Dec-2010|Slicer workshop in Dundee, UK]]
*December 8: [[Events:Manchester-Dec-2010|Slicer workshop in Manchester, UK]]
----
*November 28-December 3: RSNA 2010, The 96th Annual Meeting of the Radiological Society of North America, Chicago IL
**November 29: 2:30 pm-4:00 pm: [[Events:RSNA_2010| 3D Interactive Visualization of DICOM images with Slicer]]
**November 30: 10:30 am-12:00 pm: [[Events:RSNA_2010_CTSA| Quantitative Medical Imaging for Clinical Research and Practice]]
**December 2: 10:30 am-12:00 pm: [[Events:RSNA_2010_didactic| Lifecycle of an imaging biomarker: from validation to dissemination]]
* November 17-18: [[EngineeringRetreat2010|Engineering Core retreat]]
* November 12: [[MGH-NA-MIC-2010-Kickoff|MGH Kick-off meeting with Algorithms and Engineering]]
* November 8-9: [[2010-WestCoastMaster|West Coast Events]]
* November 5-6: [[AlgorithmRetreat2010|Algorithm Core retreat]]
* November 4-6: [[WidgetDesign2010|Widget Design Fiesta, Kitware, South Carborro, NC]]
* November 4-5: [[media:HataJJTalkNov2010.pdf |Robotics Presentation by Dr. Noby Hata at Advances in Surgical Technologies Symposium, Celebration, FL]]
----
* October 25-26: [[Iowa-NA-MIC-2010-Kickoff| Iowa NA-MIC Kickoff meeting (UNC Core 1 visit)]]
* October 18:[[HST_583_2010_DTI_Course| Harvard MIT Division of Health Sciences and Technology - Diffusion Tensor Imaging Lab]]
----
* September 24: [http://lcib.rutgers.edu/miccai2010/ Prostate Cancer Imaging Workshop at MICCAI in Beijing, China ]
* September 23: [http://www.grand-challenge.org/index.php/MICCAI_2010_Workshop Workshop on Medical Image Analysis for the Clinic - A Grand Challenge]
* September 23: [[Beijing_2010_NA-MIC_Workshop|Slicer Tutorial at Chinese PLA General Hospital in Beijing, China]]
* September 20: [[MICCAI_2010| NA-MIC Tutorial at MICCAI 2010 in Beijing, China]]
* September 13: [[HST_583_2010| Harvard MIT Division of Health Sciences and Technology - Neuroimage Analysis Lab]]
----
* August 12-13: [[QtAugust2010| Review of Qt port]]
* August 11: [[2010-Slicer-UNCDuke|Slicer training event at UNC and Duke]]
* August 10: [[2010-Sato-talk|Research retreat of SNR Laboratory, followed by Dr. Yoshinobu Sato's talk]]
* August 5: [http://www.termine-meduniwien.at/mediafiles/38/Vortragsankuendigung_Prof_Ron_KIKINIS_05082010.pdf?sid=4f2a2b592fc7004cea39a34993b1d72d Presentation at the AKH, Vienna]
----
* July 1: [[2010-Slicer-StLouis|Slicer training event in St. Louis]]
----
* June 26: [[2010_CARS| NA-MIC Tutorial at the Computer Assisted Radiology and Surgery Conference in Geneva, Switzerland]]
* June 21-25: '''[[2010_Summer_Project_Week|Summer Project Week at MIT]]'''
* June 18: [[2010_CCA_Retreat|Clinical Computational Anatomy one day retreat in Boston]]
----
* May 20-23:[[cscbce_2010 | 5th Canadian Student Conference
on Biomedical Computing and Engineering]]
* May 17-21: [http://www.commontk.org/index.php/CTK-Hackfest-May-2010 CTK Hackfest at Georgetown University]
* May 12: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Registration Hands-On Workshop] at Countway Library, Harvard Medical School
----
* April 28: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Visualization Hands-On Workshop] at Countway Library, Harvard Medical School
* April 29: [[2010_Slicer36_Module_Cull|Review of modules to keep and cull for the 3.6 release]]
* April 9-10: [[2010_University.of.Iowa| NA-MIC Training Workshop at the University of Iowa ]]
* April 7: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Registration Hands-On Workshop] at Countway Library, Harvard Medical School
----
* March 24: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Visualization Hands-On Workshop] at Countway Library, Harvard Medical School
* March 19: [[U-Tokyo-visit-03192010| NCIGT Workshop with delegates from University of Tokyo]] at Brigham and Women's Hospital
* March 16: [[Events:Slicer-Hands-On-Tokyo-2010| Image Guided Therapy research using 3D Slicer - Hands-On Workshop at Tokyo Women's Medical University, Tokyo, Japan (page in Japanese)]]
* March 10: [http://summit2010.amia.org/session-details NA-MIC Presentation at AMIA 2010]
* March 9: Registration Clinic at [http://www.ncigt.org/pages/IGT_Workshop_2010 IGT Workshop, Arlington, VA]
* March 7-10: Several NA-MIC personnel are participating in [[Events:CTK-Pre-Hackfest-2010|The CTK Pre-Hackfest]] in Heidelberg, Germany. This meeting is a kick off that is expected to lead to active working meetings similar to the NA-MIC Project Week activities. The meeting is organized by the [http://commontk.org CTK] group.
* March 3: Steve Pieper presents on "Visualizing Anatomy and Function from MRI Data" at [http://vizbi.org/2010/ the 2010 EMBO Workshop on Visualizing Biological Data]. NA-MIC Wiki page with [[VIZBI2010|Supplemental information from the VIZBI Conference]]. [http://www.nature.com/nmeth/journal/v7/n3s/index.html A special edition of Nature Methods] contains papers by the presenters.
----
* February 24: [[CTSC:Slicer_handson.022410| 3D Slicer Medical Image Data Visualization Hands-On Workshop]] at Countway Library, Harvard Medical School
* February 14: [[Events:CTK-Workshop-SanDiego-2010| 4th CTK workshop]] at SPIE in San Diego, CA
* February 9: [[Hata_BBN_visit|Hata BBN lecture]]
----
* January 4-8: '''[[AHM_2010|AHM, EAB, Winter Project Week in Salt Lake City]]'''

==2009==
* December 16-17: [[Dec-2009-SlicerAIMBrainstorming|Slicer Annotation and Markup Brainstorming]]
* December 15: [[Dec-2009-SlicerXND-DesignAndEngineering | Slicer/XND Preliminary Design & Engineering Planning Session at WUSTL]]
* December 1: [[Events:RSNA_CTSA_2009| CTSA at RSNA]]
----
* November 30: [[Events:RSNA_2009| 3-D Interactive Visualization of DICOM images with Slicer - RSNA 2009]] 95th Annual Meeting of the Radiological Society of North America, Chicago, IL
* November 29: [[Events:CTK-Workshop-Chicago-2009| 3rd CTK workshop]] at RSNA in Chicago
* November 23: [[CTSC:Slicer_handson.112309| 3D Slicer Medical Image Data Visualization Hands-On Workshop]], Countway Library, Harvard Medical School, room 403, 12-1pm
----
* October 16: [[SFN2009 Slicer DTI Workshop | Mapping the Brain with Diffusion Tensor Imaging - A Hands-On Workshop]] [http://www.sfn.org/am2009/ Annual Meeting of the Society of Neuroscience, Chicago, IL]
* October 9: [[Events:VT-NAMIC-NCBC-Collaboration-meeting-2009| VirginiaTech-NA-MIC collaboration progress update and planning meeting]], Surgical Planning Laboratory, 1249 Boylston Street, Boston, MA
----
* September 30: [[CTSC:ACRIN 09/30/09| Quantitative imaging workshop]] ACRIN fall meeting, Arlington, VA. Workshop in collaboration with Duke University and Johns Hopkins.
* September 25: [[Events:CTK-Workshop-September-2009| 2nd CTK workshop, Oxford UK]]
* September 24: [http://campwww.informatik.tu-muenchen.de/AMIARCS09/doku.php Augmented Environments for Medical Imaging including Augmented Reality in Computer-Aided Surgery (AMI ARCS)] MICCAI 2009 workshop, London, UK. Demonstration of the [[DBP2:JHU:PerkStation | Perk Station]]. One-on-one tutorial available [mailto:lasso@cs.queensu.ca on request].
* September 24: [http://smarts.lcsr.jhu.edu/CAI-Workshop-2009 Systems and Architectures for CAI] MICCAI 2009 workshop, London, UK. Presentation of the [[DBP2:JHU:Roadmap | computer assisted intervention plug-in module for 3D Slicer]].
* September 24: [http://www.cs.ucl.ac.uk/miccai/dmfc Diffusion Modelling and the Fibre Cup] MICCAI 2009 workshop, London, UK. Presentation of the DTI tractography validation pilot study.
* September 20-24: [http://wiki.na-mic.org/Wiki/index.php/2009_prostate_segmentation_challenge_MICCAI Prostate MRI Segmentation Challenge"] at [http://grand-challenge2009.bigr.nl/index.php MICCAI 3D Segmentation in the clinic: a grand challenge].
* September 20: [http://lmi.bwh.harvard.edu/DMRI09 MICCAI 2009 Tutorial in London: Trends in High Angular Resolution Diffusion Imaging and Brain Tissue Modelling]
* September 20: [http://people.csail.mit.edu/pohl/pmmia09.html MICCAI 2009 Workshop: Probabilistic Models for Medical Image Analysis]
* September 20: MICCAI Workshop on Information theoretic similarity measures for image registration and segmentation
* September 16-17: [[Sept-2009-SlicerWidgetsBrainstorm|Brainstorming Session on next generation widgets for Slicer]]
----
* August 25: [[Events:Slicer_Workshop_August_2009|Slicer Workshop]] at [http://www.ibmisps-worldcongress.org/precongress.asp IBMISPS], Surgical Planning Laboratory, 1249 Boylston Street, Boston, MA
* August 21: [[Events:Registration_Summit_August_2009|Registration Meeting]], Surgical Planning Laboratory, 1249 Boylston Street, Boston, MA
----
* June 29: [[Events:CTK-Workshop-June-2009|Common Toolkit Workshop]] at the [http://www.dkfz.de/index.html DKFZ] in Heidelberg, Germany hosted by the [http://www.dkfz-heidelberg.de/en/mbi/index.html MBI].
* June 28: [http://www.biomedicalimaging.org/2009/Tutorial_04.asp Tutorial on Statistical Shape Analysis: Theory, Software, and Applications] at [http://www.biomedicalimaging.org/2009/default.asp ISBI 2009], Boston, MA.
* June 25: [[Events:TutorialContestJune2009 | Summer 2009 Tutorial Contest]]
* June 22-26: '''[[2009_Summer_Project_Week|The FIRST JOINT Summer Project Week at MIT]]'''
* June 17: [[CAOS2009_Slicer Workshop| Hands-On Workshop for Slicer IGT for Computer Aided Orthopeadic Surgery]]
* June 17: [[SlicerKyusyuJune2009Lecture| Lecture and demonstration, Image Guided Therapy of abdominal organs, N Hata, at Kysyu University Medical School, Kyusyu, Japan]]
* June 16: [[SlicerNagoyaJune2009Workshop| Workshop: How to make your custom IGT software using 3D Slicer, N Hata, Nagoya Institute of Technology, Nagoya, Japan]]
----
* May 11-12: Core 1 PI meeting at Georgia Tech.
* May 8: [http://www.na-mic.org/Wiki/index.php/IMFAR2009 IMFAR 2009] - [http://www.autism-insar.org/index.php?option=com_content&task=view&id=36&Itemid=105 Presentation at the 8th Annual International Meeting for Autism Research (IMFAR) in Chicago, IL] entitled Use of the Slicer3 Toolkit to Produce Regional Cortical Thickness Measurement of Pediatric MRI Data".
* May 8: Focus session on [[Volume Rendering and Loadable Modules: (Engineering & Usability Notes)]].
* May 4-5: Core 1 / Core 2 visit at Georgia Tech ([[May 4, 2009 Notes]], [[May 5, 2009 Notes]]).
----
* March 19: [[NCI Slicer Tutorial 03-19-2009|NCI Slicer tutorial, ]] We had to reschedule! New date TBD!
* March 4: [[2009-03-04-Editor-Usability|Interactive Editor usability]] session in Rons office
----
* February 24: 1249 Boylston: [http://www.slicer.org/slicerWiki/index.php/Slicer3:Using3.4 Afternoon session to walk through common Slicer3.4 usage scenarios]
* February 24: BWH (location: Mellins Library) [[BWH_RadiologyResident_Training2009.1| NA-MIC 3D Slicer 3.2 Hands-On Workshop]]
* February 17-20: [[GWE_MiniRetreat|GWE Mini Retreat]], Boston
----
* January 28-30: [http://www.slicer.org/slicerWiki/index.php/Slicer3:MiniRetreat_January_28-30,2009 Slicer3 MiniRetreat]
* January 7: [[Events:TutorialContestJan2009| Winter 2009 Tutorial Contest]]
* January 5-9: '''[[AHM_2009| AHM,]] [[2009_EAB|EAB,]] [[2009_Winter_Project_Week|Winter Project Week in Salt Lake City]]'''

== 2008 ==
* December 15-16: [[2008_Engineering_review_at_UNC|2008 Engineering review at UNC]], Chapel Hill
* Fall Semester 2008 Ibanez and Schroeder teach [http://public.kitware.com/OpenSourceSoftwarePractice/index.php/Main_Page Open Source Software Course] at Rensselaer Polytechnic Institute
* December 8-12: [[2008_IGT_Project_Week|IGT Hands-on Project Week]], Boston
* December 1: [[Events:RSNA2008| Tutorial at RSNA]], [http://rsna2008.rsna.org/ RSNA conference website]
----
* November 15-19: [[NA-MIC_Lupus_DBP_Worskhop_SFN2008|NA-MIC Lupus DBP White Matter Lesion Tutorial Release at 2008 Society for Neuroscience Annual Meeting, Washington, DC]]
* November 18: [[Slicer3_Q&A_2008-11-18|Slicer Q&A Session at BWH]]
* November 4: [[NA-MIC_3D_Visualization_Workshop_Massachussetts_General_Hospital|NA-MIC 3D Visualization Workshop at Massachusetts General Hospital, Boston, MA]]
----
* October 30 : [[NA-MIC_3D_Visualization_Workshop_Brigham_and_Women's_Hospital| NA-MIC 3D Visualization Workshop at Brigham and Women's Hospital, Boston, MA]]
* October 28: [[Harvard_Medical_Education_Day | Harvard Medical Education Day, Boston, MA]]
* October 15-16: [[Robarts_Training_Session | NA-MIC kit training event at The University of Western Ontario]], London, Ontario, Canada
* October 21: Nobuhiko Hata gave a talk entitled "Role of Image Processing, Navigation and Robots in MRI-guided Intervention", at the Bioimaging Sciences Division, Department of Radiology, Yale University School of Medicine, New Heaven, CT
* October 17: Nobuhiko Hata gave a talk entitled "Role of Image Processing, Navigation and Robots in MRI-guided Intervention", at Robarts Institute, University of Western Ontario, Ontario, Canada
* October 7: [[Stefan_Baumann_visit | Stefan Baumann from Novartis will present at 1249 Boylston]]
* October 7: [[Slicer_Day_October_2008|Slicer in the Fall]], 1249 Boylston, Boston MA
----
* September 10: [[Miccai_2008_Tutorial| Interfacing third-party software with the NA-MIC Kit]]: Tutorial at MICCAI 2008, New York City
* September 10: [[Miccai_2008_Prostate_Workshop| Prostate image analysis and computer-assisted intervention]]: Workshop at MICCAI 2008, New York City
* September 6: [[Miccai_2008_Systems_and_Architecture_Workshop| Systems & architecture for computer a

== 2007 ==
* December 12-14: [[2007_December_Slicer_IGT_Programming|Slicer IGT Programming Event]]
----
* November 2: [http://www.insightsoftwareconsortium.org/wiki/index.php/2007_MICCAI_Open_Workshop Third Annual Open Source Workshop at MICCAI]
----
* October 16-17: [http://nbirn.net/about/current/ahm2007.shtm BIRN AHM] Query Atlas and Qdec interfaces in Slicer 3 presented at the BIRN AHM.
* October 14-20: [[2007_October_Collaboration_Visit_Robert_Israel|Robert Israel Collaboration Visit to the Surgical Planning Laboratory]]
** [http://wiki.na-mic.org/Wiki/index.php/Slicer3:Module:QueryAtlas See this page] for links to QueryAtlas slides, movies and example datasets.
** [http://wiki.na-mic.org/Wiki/index.php/Image:Slicer3QDEC_AHM2007.ppt See this page] for links to Qdec slides.
* October 1-2: [[SanteFe.Tractography.Conference | Contrasting Tractography Methods Conference, Santa Fe]]
----
* September 12: [[Engineering:September 12, 2007 | Engineering End of Summer Meeting]]
* September 11: [[GPU.Enabled.Tools.Meeting | GPU-enabling of NA-MIC Algorithms, Boston]]
----
* August 21: [[DBP2:UNC:Cortical Thickness Roadmap | UNC DBP Roadmap Tcon]]
----
* June 25-29: '''[[2007_Programming/Project_Week_MIT|Summer Project Week at MIT]]'''
* June 9: [[Training:OHBM2007_Training_Workshop|OHBM DTI Training Workshop, Chicago]]
* June 1: [[2007_Pohl_at_CCB|Pohl Talk at CCB: A Hierarchical Segmentation Algorithm for MR Brain Images]]
----
* May 29-31: [[2007_Core_1_Meeting|Annual Core 1 Workshop, Boston]]
----
* April 24: Steve Pieper presented Slicer3 and the NA-MIC Kit to the [http://gray.mgh.harvard.edu/content/index.php Medical Physics group at MGH] [http://wiki.na-mic.org/Wiki/images/9/9c/Pieper-MGH-medical-physics-2007-04-24.ppt (slides)]
----
* March 29-30: [http://www.slicer.org/slicerWiki/index.php/Slicer3:MiniRetreat_March_29%2C_30%2C_2007 Slicer3 Mini-Retreat, Boston]
----
* February 21-22: Vince Calhoun from MIND is visiting at MIT and MGH [http://www.csail.mit.edu/events/eventcalendar/calendar.php?show=event&id=1349 Talk announecement]
* February 3 and 10, 2007: [http://mri.radiology.uiowa.edu/mediawiki/index.php/ITK_Programming_Short_Course_-_Feb_2007 Iowa ITK Programming Short Course]
* February 7-8: [http://www.slicer.org/slicerWiki/index.php/Slicer3:MiniRetreat Slicer3 Mini-Retreat, Boston]
----
* January 29: [[P41-2007-Joint-Retreat | CFIT NAC P41 2007 Joint Retreat]]
* January 16: [[2007-01-16 Core 5, Core 6 Summit]]
* January 10-12: '''[[AHM_2007|AHM, EAB, Winter Project Half Week in Salt Lake City]]'''

== 2006 ==
* December 12: [http://www.slicer.org/slicerWiki/index.php/Slicer3:Alpha-release Slicer3 retreat at Kitware]
----
* November 15: [http://www.slicer.org/slicerWiki/index.php/Slicer3:Usability Usability session with PNL at BWH]
* November 7-8: [[2006_November_Meshing_Project_Visit| Meshing Collaborator Project Visit to BWH]]
* November 1: [[Training:User_Workshop_Fall_HCNR_2006| NA-MIC Training Workshop at the Harvard Center for Neurodegeneration and Repair, Boston.]]
----
* October 26: [[Oct-26-2006-MIND-visit_Visiting_the_MIND_institute|New DBP MIND Institute Visit]]
* October 23-26: [http://www.nbirn.net/press/current/ahm2006.shtm <nowiki>| BIRN All Hands Meeting</nowiki>]
* October 19-20: [[IGT:October_2006_IGT_Workshop| NCIGT and NA-MIC Workshop on Open System Architectures for Image-Guided Therapy]]
* October 17: [[Core1-3-meeting-2006|Coordination meeting]] between Core 1 and Core 3 to plan the specifics for the third and last year of the current DBP's
* October 1: [http://www.insightsoftwareconsortium.org/wiki/index.php/2006_MICCAI_Open_Workshop MICCAI_2006 Open Source Workshop at MICCAI 2006, Copenhagen]
----
* September 19-20: [[2006_September_Slicer3_Update| Slicer 3 Update Meeting in Boston]]
* September 14-15: We have been invited to participate in [http://usms.nist.gov/workshops/bioimaging.htm NIH Workshop on Standards in Change Measurement]. This workshop will potentially set the stage for additional workshops that focus on Image Guided Interventions and Open Source standards.
* September 6: [http://www.ibmisps.org/pdf/InformationparticipantsANGLAIS.pdf 2006 IBMISPS conference:] [[Media:Kikinis-IBMISPS-09-06-2006.ppt|talk]] by [[media:Kikinis-FOSS.ppt|R. Kikinis on FOSS]] ([[2006 FOSS Abstract Kikinis]])
----
* July 19: [[Training:NLM_Workshop_2006| NA-MIC Training Workshop at NLM]]
* July 17-19: [[NIH:_2006_All_NCBC_Meeting| All NCBC All Hands Meeting at NIH]]
* July 13-14: [http://bsp.csie.nctu.edu.tw/lssa06/ 2nd IEEE-NLM International Life Science Systems and Applications Workshop, Lister Hill Auditorium, NIH, chaired by Stephen Wong, co-sponsored by IEEE, NLM, and NAMIC]
* July 2: Ron Kikinis [[Media:NA-MIC-Kit-07-01-2006.ppt| presentation]] (28MB ppt file) at the [http://www.future-cad.org/fcad/Docs/CFP_for_2nd_Int_Sympo_2006_ver3.2.pdf The 2nd International Symposium on Intelligent Assistance in Diagnosis of Multi-Dimensional Medical Images ]
----
* June 26-30: '''[[2006_Programming/Project_Week_MIT|Summer Project Week at MIT]]'''
* June 8-9: [[Georgia_Tech_visit_to_UNC%2C_June_8-9|Georgia Tech visit to UNC: Shape Analysis Discussion]]
* June 5: [http://www.slicer.org/slicerWiki/index.php/Slicer:Slicer3-June-5-2006-Retreat Slicer 3 Retreat]
----
* May 30: [http://www.cimit.org/forum/forum.html CIMIT Forum] with Steve Pieper and Luis Ibanez ([[Media:CIMIT-BIRN-update-2006-05-30.ppt| Steve's Slides]])([[Media:CIMIT-2006-IGSTK-InsightJournal.ppt| Luis' Slides]])
* May 26: [[Training:DTI_Workshop|UNC-Chapel Hill NA-MIC DTI Analysis Training Workshop]]
* May 23-24: [[Algorithms:Core1Visit_May06| NA-MIC Core 1 meeting at UNC]]
* May 19: [[Slicer:StevePieper_RonKikinis_VisitToDartmouth_051906|Steve Pieper and Ron Kikinis Visit to Dartmouth]]
* May 15: [[DBP:Harvard:Collaboration:GTech#Progress|Delphine Nain at the PNL]]
----
* April 27: [[Training:NIH_Workshop_2006|NA-MIC Training Workshop at NIH]]
* April 24: [http://www.nimh.nih.gov/neuroinformatics/springagenda2006.cfm The Human Brain Project: Linking Within and Beyond] Natcher Conference Center, NIH Campus, Bethesda, Maryland: National Alliance for Medical Image Computing: Science & Technology of One National Center for Biomedical Computing [[Media:NA-MIC_Kit_revised.ppt| (this is a slightly modified version of the presentation)]]
* April 12-13: [[DBP:Harvard:Collaboration:Toronto|James Kennedy and Aristotle Voineskos at the PNL]]
* April 10-11: [[Training:MIND_Institute_Workshop_Spring_2006| NA-MIC Training Workshop at MIND Institute, New Mexico]]
* April 10-11: Steve Pieper presented the NA-MIC Kit at [http://www.biomedicalimaging.org ISBI] 2006 on April 7, 2006 ([[Media:NA-MIC-2006-04-07-ISBI.ppt| Slides]], [[Media:Pieper-ISBI-2006-revised.pdf| Paper]]).
* April 3-4: [http://www.slicer.org/slicerWiki/index.php/Slicer3:_Alpha1_Meeting Design Review and Work meeting on Slicer3 (alpha1 release)]
----
* February 22-24: [[Engineering:Slicer3_and_GPU| Meeting at Kitware to discuss Slicer3 (Thursday) and GPU programming (Friday)]]
* February 22: [[DBP:Sylvain_Doug_visit_Dartmouth_Feb_22_2006|Sylvain Bouix to visit Dartmouth]]
* February 20-23: [[IGT:Workshop_Feb_2006|IGT and FUS Workshops]]
----
* January 24: [[Training:User_Workshop_SPL_Winter_HCNR_2005| HCNR User Training Workshop at the Surgical Planning Laboratory, Boston, MA]]
* January 8-13: '''[[AHM_2006:AHM_2006| AHM, EAB, Winter Project Week in Salt Lake City]]'''

== 2005 ==
* December 20: [[DBP:Marek_Kubicki_visit_Dartmouth_December_20_2005| Marek Kubicki visit to Dartmouth]]
* December 17: [[Collaboration:GT-UCI| Jim Fallon from UC Irvine visit to Georgia Tech for work on Rule-Based Segmentation]]
* December 14: [[DBP:Andy_Saykin_visit_BWH_December_14_2005|Andy Saykin and Group visit to Brigham and Women's Hospital]]
* December 1: [[DBP:Dartmouth_Harvard_Slicer_Training_12_01_2005| Dartmouth Group Slicer Training Followup at Harvard, 1249 Boylston]]
----
* November 27-December 2: [http://rsna2005.rsna.org/rsna2005/V2005/index.cvn RSNA 2005, Chicago: Slicer session at the Open source imaging tools workshop]
* November 18: [[DBP:Harvard:Collaboration:GTech#Progress|Ramsey Al-Hakim at the PNL]]
* November 17-18: [[Collaboration:GT-Kitware|John Melonakos at Kitware -- Bayesian Classification Filter addition to ITK]]
* November 16: [[IGT:2005_Nov_16_IGT_Consortium_Kickoff| IGT Consortium Kickoff]]
* November 16: [[Collaboration:UNC-UCI|Jim Fallon and Martina from UC Irvine visit to UNC on DTI tools and clinical projects]]
* November 15: [[Engineering:Slicer3.0_November_15_2005| Slicer 3.0 Meeting at Surgical Planning Laboratory, Boston, MA]]
----
* October 29: [[Dissemination:MICCAI_Workshop_2005|ISC and NA-MIC Workshop on Open Source Toolkits, Applications, and their uses in Medical Image Analysis at MICCAI]]
* October 29: Informal NA-MIC Lunch at MICCAI, Palm Springs, CA
* October 20: [[2005_AHM:_3D_Slicer/Freesurfer_Workshop|Slicer Training Workshop, AHM BIRN San Diego, California]]
* October 7: [[Collaboration:UNC-PNL|UNC visit at the Psychiatry NeuroImaging Laboratory]]
* October 5-7: [[Dissemination:EPFL_Workshop_2005|Swiss Federal Institute of Technology (EPFL), Lausanne, Switzerland: Advanced ITK and Slicer Workshop]]
----
* September 30: [[Training:User_Workshop_SPL_Fall_2005|User Training Workshop in the Surgical Planning Laboratory, Boylston St, Boston, MA]]
* September 26-28: [[Engineering:Core_3_Programming_Week#1_Feedback|DBP and Engineering Session on Feedback from Programming Week Projects, and Planning the next 6-months]]
* September 16: [[Training:User_Workshop_MGH_Summer_2005| User Training Workshop at MGH]]
----
* August 11: [[Dissemination:CSB2005|Invited Lecture about NA-MIC.]]
----
* July 20: [[Collaboration:Workshop_July_20_2005|UNC visit of Georgia Tech for collaborative work on shape and DTI algorithms]]
----
* June 27-July 1: [[Engineering:Programmers_Week_Summer_2005| '''Summer Project Week at MIT''']]
* June 22-23: [[Dissemination:NCRR_NIBIB_PI_Meeting_June_22-23_2005|NCRR/NIBIB PI Meeting]]
* June 16-19: [[Collaboration:Workshop_June_16-19_2005|Georgia Tech visit of UC-Irvine for collaborative work on anatomically accurate algorithms.]]
----
* May 26-27: [[Dissemination:Workshop_May_26-27_2005|User Training and Dissemination Workshop at Dartmouth]]
----
* April 21-22: [[DBP:Andy_Saykin_visit_BWH_April_21_2005| Andy Saykin visit to Brigham and Women's Hospital and MIT]]
----
* March 25: University of Utah visit of Harvard VA for collaborative work on DTMRI.
* March 21-23: [[FBIRN:retreat2005|fBIRN Retreat in Irvine with User Tutorials for Slicer, Brains2 Wednesday on March 23]]
----
* February 20-22: [[AHM_2005:Main|'''The First All-Hands-Meeting and Programming Event in Salt Lake City, Utah''']]
* February 17-18: [[Dissemination:Workshop_Feb17-18_2005| Dissemination Workshop at UCSD]]
----
* January 26: Slicer User Workshop at BWH: [http://www.slicer.org/slicerWiki/index.php/Slicer:User_Workshop_Jan26 Information for Atendees]
* January 24-25: Dissemination Workshop at [[Dissemination:Workshop_Jan24-25_Boston|Agenda]], [[Dissemination:Workshop_Jan2005_Interested_Attendee_List|List of Participants]], [[Talk:Dissemination:Workshop_Jan24-25_Boston_Feedback|Attendee Feedback]]
* January 17-18: [http://www.imaginggenetics.uci.edu First International Imaging Genetics Conference] at the Beckman Center of the National Academy of Sciences in Irvine, CA.

== 2004 ==

* December 9-10: Dissemination Workshop in the Surgical Planning Laboratory, BWH: [[Dissemination:Workshop_Dec9-10_Boston|Agenda]], [[Dissemination:Workshop_Dec9-10_Boston_Presentations|Presentations]], [[Dissemination:Workshop_Dec9:10_Attendees_List|List of Participants]], [[Dissemination:Workshop_Dec9:10_Summary|Summary]], [[Talk:Dissemination:Workshop_Dec9-10_Boston_Feedback|Attendee Feedback]]
----
* November 16: Dissemination Meeting: [[Dissemination:Kickoff_Agenda|Agenda]], [[Dissemination:Kickoff_Summary|Summary]]
----
* October 15: [[Kickoff:Main| NA-MIC Kickoff Meeting]]

===Testing Google Calendar===

[http://www.google.com/calendar/embed?src=r8bddigidepgvog24cpfk1bjgs%40group.calendar.google.com&ctz=America/New_York NA-MIC Calendar on Google]

Events

2013-04-10T14:44:49Z

Cates: /* 2013 */

__TOC__
== Introduction ==
{| border="00" cellpadding="8" cellspacing="0"
|-
| rowspan="2"| NA-MIC organizes a variety of events. The engineering core holds a weekly telephone conference. Workshops address specific research focus areas. Training events aim at training NA-MIC participants and outsiders in NA-MIC technologies. Project weeks are intended for making progress in a variety of projects. The majority of NA-MIC events are hands-on and open to collaborators and interested scientists.<br>
If you want to get going with Slicer, go to the list of past events and look for the most recent one-day workshop or tutorial.
| style="background: #ebeced" colspan="2" align="center"| <b>Example of a Training Event</b>
|-
| style="background: #ebeced"| [[Image:RSNA2011.jpg|250px]]
| style="background: #ebeced"| The RSNA 2011 training workshop in full swing. For more information about the workshop, please click [http://www.na-mic.org/Wiki/index.php/RSNA_2011 here].
|}

== [[TCON:Main|'''Telephone Conferences''']] ==
== Upcoming Events ==

== 2013 ==
*'''April 10-11:''' [http://www.na-mic.org/Wiki/index.php/Iwate_2013_Training Slicer Ultrasound Workshop], Iwate, Japan
*'''April 22:''' [[2013_ISMRM_CardiacStudyGroup_CARMA]] ISMRM 2013 Cardiac Study Group Tutorial: Slicer for segmentation and enhancement quantification in cardiac LGE-MRI. Salt Lake City, Utah.
*'''May 20-24:''' [http://www.commontk.org/index.php/CTK-Hackfest-May-2013 CTK Hackfest], Kingston, Ontario, Canada
*'''May 24:''' [http://www.kitware.com/products/protraining.php?course=05/24/2013 3D Slicer: Visualize and Analyze your datasets]. Kitware Training Course, Lyon, France.
*'''June 17-21:''' [[2013_Summer_Project_Week|'''Summer Project Week at MIT]]'''
*'''June 17-21:''' [[2013_Tutorial_Contest|'''Summer 2013 Tutorial Contest''']]
*'''June 26-29:''' [[CARS2013| 3D Slicer hands-on workshop on Image-Guided Therapy and joint Slicer/CTK/MITK workshop, CARS 2013, Heidelberg, Germany]]
*'''September 11''': [[WFNS2013| Invited lecture at the 15th WFNS World Congress of Neurosurgery, Seoul, Korea]]
*'''September 22''': [http://dti-challenge.org MICCAI 2013 DTI Tractography Challenge on Peritumoral White Matter Anatomy for Neurosurgical Decision-Making]
*'''September 26''': [http://www.dkfz.de/en/mbi/ctk-miccai2013/index.html MICCAI 2013 CTK Tutorial]

== Standing Events ==
* [[TCON:Main|A list of all upcoming and past teleconferences is available here]]
* [[Engineering:Programming_Events|Hands on Project Events]]
* [http://www.slicer.org/slicerWiki/index.php/Slicer:Developer_Meetings Slicer developer meetings are here]
* [[Event:Journal Club at BWH|Journal Club at BWH]]

== Past Events ==
==2013==
*'''April 8:''' [[Imaging_in_Neuroscience| Imaging in Neuroscience Course]], Boston
*'''April 9:''' [http://www.na-mic.org/Wiki/index.php/Tokyo_2013_Training Slicer Workshop], Tokyo, Japan
*March 21-23: [http://www.ncigt.org/pages/IGT_Workshop_2013 6th NCIGT and NIH Image Guided Therapy Workshop] in Crystal City, VA
*March 11: [[CIR_visit_Vienna_Medical_Center | Slicer lecture at the Computational Image Analysis and Radiology laboratory, Medical University, Vienna]]
*March 11: [[SlicerRT_workshop | SlicerRT workshop, Medical University, Vienna]]
*March 8: [http://www.na-mic.org/Wiki/index.php/Autoseg_2013 Automatic Segmentation Algorithm Workshop, Boston, MA, USA]
*March 7-11: [http://www.na-mic.org/Wiki/index.php/ECR_2013 European Congress of Radiology, Vienna, Austria]
*March 4: [[2013-03-4- TWMU_Visit| Delegates from Research Administration Office at Tokyo Women's Medical University visits SNR Lab/NCIGT and AMIGO]]
*February 28-March 5: [[2013_Dr_Chen_Visit | Visit of Dr. Xiaolei Chen, PLA General Hospital, Beijing at the SPL]]
----
*February 22: [[2013-02-22 Dr. Takahashi's Visit to SNR Lab/NCIGT and AMIGO|Dr. Takahashi's Visit to SNR Lab/NCIGT and AMIGO]]
*February 14: [[2013-02-14-Slicer_Demo_at_Memorial_Sloan_Kettering_Cancer_Center | Demo the Slicer segmentation and registration tools at the Memorial Sloan Kettering Cancer Center]]
*February 14: [[2013-02-14-Korean_Surgical_Robot_Research_Team_Visit | Surgical Navigation and Robotics Laboratory hosts a robotic surgery research group from Korea]]
*February 9-14: [http://www.na-mic.org/Wiki/index.php/SPIE_2013_DTI_Workshop SPIE 2013 Diffusion Tensor Imaging Course, Orlando, FL]
*February 7: [[2013-02-07-MGH_Slicer_user_meeting | Slicer user/developer meeting with the MGH user group]]
----
*January 31: [[GolbyLabMeeting_DTIChallenge | MICCAI DTI Challenge Presentation at Golby Lab Meeting, Brigham and Women's Hospital]]
*January 28: [http://www.assembla.com/wiki/show/slicerrt/20130128_slicer_matlab_personal_cloud_meeting Slicer Matlab personal cloud meeting]
*January 7-11: [[AHM_2013|'''AHM, EAB, Winter Project Week in Salt Lake City]]'''

==2012==
*December 10: [[ PNL_2012 | PNL Slicer4 Training Workshop]]
*December 3: [[HST_2012 | Harvard-MIT Division of Health Science and Technology - Diffusion Tensor Imaging Course]]
----
*November 25-30: [[RSNA_2012 | 98th Annual Meeting of the Radiological Society of North America (RSNA 2012), Chicago IL]]
*November 14: [[CMF_Workshop_Cleveland_2012| 3D Cranio Maxillo Facial workshop, CWRU Cleveland, OH]]
*November 8-9: [http://meetings.nigms.nih.gov/index.cfm?event=general&ID=15208 NCBC showcase event in Washington DC]: [[media:NA-MIC-Overview-2012-11.pdf|PDF of the overview slides]]
----
* October 8: [[Niguarda_Ospedale_Visit| Invited visit to the Epilepsy and Parkinson Surgery Centre "Claudio Munari" Ospedale Niguarda "Ca' Granda", Milan, Italy]]
* October 1: [[DTI_Tractography_Challenge_MICCAI_2012| DTI Tractography Challenge, MICCAI 2012, Nice, France]]
* October 1: [http://www.sci.utah.edu/stia2012-home.html 2nd International MICCAI Workshop on Spatiotemporal Image Analysis for Longitudinal and Time-Series Image Data (STIA'12), MICCAI 2012, Nice, France]
----
* September 25-26: [[Pieper-MeVis-2012-09| Steve Pieper visited MeVis]]
* September 20: [[DrShekhar_Visit_Sep_2012|Dr. Raj Shekhar's visit to NCIGT]]
* September 12: [[Universidad Autonoma del Estado de Mexico Symposium | 3DSlicer invited lecture at the First Symposium on Medical Bioengineering, Universidad Autónoma del Estado de México, Mexico City, Mexico]]
* September 10:''' [[HST_583_2012| Harvard-MIT Division of Science Health and Technology HST.583 - Neuroimage Analysis Lab]]
----
* August 29: [[BU_Slicer4_Training_Session| BU Slicer4 Training session]]
* August 20: [[Slicer4.2Planning|Slicer 4.2 Planning meeting]]
* August 20-21: [[Core 1 Retreat 2012|Core 1 Retreat 2012 in Park City, UT]]
----
* July 30: [[AAPM_2012 | 3D Slicer User Group at AAPM, Charlotte, NC]]
* July 9-13: [http://www.commontk.org/index.php/CTK-Hackfest-Jul-2012 CTK Hackfest, Boston, USA]
----
* June 30: [[CARS_2012 | NA-MIC IGT Workshop, CARS 2012]]
* June 18-22: [[2012_Summer_Project_Week|'''Summer Project Week at MIT''']]; [[2012_Tutorial_Contest| Summer 2012 Tutorial Contest]]
----
* May 21-22: [[Madrid-May-21-2012-Slicer-Workshop| Slicer workshop in Madrid, ES]]
* May 16: [http://www.ias.uwa.edu.au/lectures/kikinis| Public lecture, UWA, Perth, AU]
* May 14: [http://www.ias.uwa.edu.au/masterclass/kikinis Masterclass, UWA, Perth, AU]
* May 2: [http://www.hisa.org.au/events/event_details.asp?id=224112 Slicer workshop at St Vincent's Hospital in Fitzroy, Melbourne, AU]
----
* April 30-May 1: [http://www.cs.ucl.ac.uk/opensource_mia_ws_2012/ Slicer presentation at the International Symposium on Biomedical Imaging (ISBI 2012), Barcelona, Spain]
* April 26: [http://www.hisa.org.au/events/event_details.asp?id=224111 Slicer workshop at St. Vincent Hospital in Sydney, AU]
* April 5: [[NEU-Medical-Physics-Seminar| Northeastern University Medical Physics Seminar, Gregory Sharp, Nobuhiko Hata]]
----
* March 20-21: [[Iowa-March-20-2012-Slicer-Workshop| Slicer workshop in Iowa]]
* March 16: [[Particle_UNC_Utah| Particle training seminar, UNC Chapel Hill, NC]]
* March 5-6: Slicer booth presentation at the annual [https://wiki.nci.nih.gov/display/CIP/QIN Quantitative Imaging Network] face-to-face meeting; NCI, Washington DC
----
* February 27: [[Slicer-4.1| Plans for Slicer 4.1]]
* February 29: [[Chapel-Hill-February-29-2012-Slicer-Talk| Slicer talk at UNC]]
* February 14: [[TWMU_Medtronics_OpenIGTLink| TWMU Open IGT Link - Stealth station Project, Kick-off, Tokyo, Japan]]
* February 5: [[SPIE_2012_DTI_Workshop| SPIE 2012 DTI Course, San Diego, CA]]
----
* January 9-13: [[AHM_2012|'''AHM, EAB, Winter Project Week in Salt Lake City''']]

== 2011 ==
*November 27-December 2: [[RSNA_2011 | 97th Annual Meeting of the Radiological Society of North America (RSNA 2011), Chicago IL ]]
*November 14-18: [http://www.commontk.org/index.php/CTK-Hackfest-Nov-2011 CTK Hackfest, Sophia Antipolis, France]
*November 11: [[SFN2011 Diffusion_Tensor_Imaging_Analysis Workshop |White Matter Exploration with Diffusion Tensor Imaging: Fundamentals and Perspectives - SFN 2011 Workshop, Washington DC]]
*November 9: [[CMF_Workshop_Cleveland| 3D Cranio Maxillo Facial workshop, CWRU Cleveland, OH]]
*November 3: [[2011_Slicer4-PreRSNAHackFest|Slicer4 PreRSNA Hackfest, Google hangouts]]
*November 2: [[BWH_Resident_Fair| 3DSlicer exhibit at the BWH Resident Fair, Boston, MA]]
----
*October 20: [[2011_Slicer4-Documentation-Sprint|Slicer4 Documentation Sprint]]
*October 14-15: [[2011_Algorithms_Retreat|Algorithm Core Retreat in New England]]
*October 12-13: [http://www.ncigt.org/pages/IGT_Workshop_2011 NCIGT Workshop in DC]
----
*September 28: [http://wiki.na-mic.org/Wiki/index.php/Event:Journal_Club_at_BWH Journal Club talk: Seyed-Ahmad Ahmadi]
*September 26-28: [[Events:2011_Hungary_Slicer_Training|Programming and End-User Training in Szeged Hungary]]
*September 18: '''[http://www.na-mic.org/Wiki/index.php/Events:_DTI_Tractography_Challenge_MICCAI_2011 DTI Tractography for Neurosurgical Planning: A Grand Challenge - MICCAI 2011 Workshop, Toronto, Canada]'''
----
*August 4: [[Events:UBC_3D_Slicer_workshop_August_2011|UBC 3D Slicer workshop August 2011]]
*August 2: [[Events:2011-08-02-AAPM-Slicer-Users-Group-Meeting|3D Slicer users group meeting at AAPM annual meeting in Vancouver BC]]
----
*July 19-21: [[Events:Slicer4-Review-07-2011 | Slicer 4 Review and Programming Sprint, 1249 Boylston St., Boston, MA]]
----
*June 26-30: [[Events:3DSlicer_Booth_OHBM_2011 | 3DSlicer Booth, OHBM 2011, Quebec City, Canada]]
*June 20-24: [[2011_Summer_Project_Week|'''Summer Project Week at MIT''']]
*June 15: [[Events:2011-06-15-Robarts-Slicer-Workshop|Slicer Workshop at the Biomedical Imaging Research Centre at the University of Western Ontario]]
*June 13: [http://www.na-mic.org/Wiki/index.php/Summer_2011_Tutorial_Contest Summer 2011 Tutorial Contest] Submission dead-line.
*June 7: [[Events:2011-06-07-UCSF-Diffusion-Imaging-Workshop|UCSF Diffusion Imaging Workshop, San Francisco]]
----
*May 5: [[Events:Computational_Methods_for_Radiation_Oncology|Computational Methods for Radiation Oncology, Boston]]
----
*April 27: [[Events:Slicer-Hands-On-Hiroshima-2011|Slicer and OpenIGTLink Hands-on Training, Hiroshima, Japan]]
*April 22: [[Event:2011-04-UtahDBP-Training|Slicer Hands-on Training For The Utah Afib Team]]
*April 12: [[Event:2011-04-DiMaioTalk|Talk by Simon DiMaio "da Vinci and Beyond"]]
*April 5: [http://www.na-mic.org/Wiki/index.php/Events:_Johns_Hopkins_University_Seminar_April_2011 Training Workshop at Johns Hopkins University]
----
*March 16-18: [http://vizbi.org VIZBI 2011] in Cambridge, MA includes NAMIC-affiliated speakers and VTK tutorials.
*March 15-16: [http://catalyst.harvard.edu/services/ittm/module1.html Harvard Catalyst Biomarkers and Imaging in Drug Development course] includes [[media:Pieper-Image Processing Strategies.pptx|a presentation on image processing approaches]] including NA-MIC and 3D Slicer.
*March 11: [[CTSC:Slicer_handson.021810| 3D Slicer Quantitative Medical Image Data Visualization Hands-On Workshop, Countway room 403, (12-1pm)]]
*March 4: New [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues#DONE:_Issues_fixed_for_inclusion_in_Slicer_3.6.3_--_included_in_release_builds_of_March_4.2C_2011 Slicer3.6.3 Patch Release]
----
*February 19-23: [[Event:2011_Registration_Retreat|Registration Retreat]]
*February 18: [[CTSC:Slicer_handson.021810| 3D Slicer Quantitative Medical Image Data Visualization Hands-On Workshop]] Harvard Countway Library room 403, (12-1pm)
*February 7-11: [http://www.commontk.org/index.php/CTK-Hackfest-Feb-2011 CTK Hackfest in Chapel Hill, NC]
*February 4: [[Media:Fedorov-MGH-4Feb2011.pdf|Presentation of 3D Slicer for the MGH tumor measurement group]]
----
*January 10-14: '''[[AHM_2011|AHM, EAB, Winter Project Week in Salt Lake City]]'''

== 2010 ==
*December 6-7: [[Events:Dundee-Dec-2010|Slicer workshop in Dundee, UK]]
*December 8: [[Events:Manchester-Dec-2010|Slicer workshop in Manchester, UK]]
----
*November 28-December 3: RSNA 2010, The 96th Annual Meeting of the Radiological Society of North America, Chicago IL
**November 29: 2:30 pm-4:00 pm: [[Events:RSNA_2010| 3D Interactive Visualization of DICOM images with Slicer]]
**November 30: 10:30 am-12:00 pm: [[Events:RSNA_2010_CTSA| Quantitative Medical Imaging for Clinical Research and Practice]]
**December 2: 10:30 am-12:00 pm: [[Events:RSNA_2010_didactic| Lifecycle of an imaging biomarker: from validation to dissemination]]
* November 17-18: [[EngineeringRetreat2010|Engineering Core retreat]]
* November 12: [[MGH-NA-MIC-2010-Kickoff|MGH Kick-off meeting with Algorithms and Engineering]]
* November 8-9: [[2010-WestCoastMaster|West Coast Events]]
* November 5-6: [[AlgorithmRetreat2010|Algorithm Core retreat]]
* November 4-6: [[WidgetDesign2010|Widget Design Fiesta, Kitware, South Carborro, NC]]
* November 4-5: [[media:HataJJTalkNov2010.pdf |Robotics Presentation by Dr. Noby Hata at Advances in Surgical Technologies Symposium, Celebration, FL]]
----
* October 25-26: [[Iowa-NA-MIC-2010-Kickoff| Iowa NA-MIC Kickoff meeting (UNC Core 1 visit)]]
* October 18:[[HST_583_2010_DTI_Course| Harvard MIT Division of Health Sciences and Technology - Diffusion Tensor Imaging Lab]]
----
* September 24: [http://lcib.rutgers.edu/miccai2010/ Prostate Cancer Imaging Workshop at MICCAI in Beijing, China ]
* September 23: [http://www.grand-challenge.org/index.php/MICCAI_2010_Workshop Workshop on Medical Image Analysis for the Clinic - A Grand Challenge]
* September 23: [[Beijing_2010_NA-MIC_Workshop|Slicer Tutorial at Chinese PLA General Hospital in Beijing, China]]
* September 20: [[MICCAI_2010| NA-MIC Tutorial at MICCAI 2010 in Beijing, China]]
* September 13: [[HST_583_2010| Harvard MIT Division of Health Sciences and Technology - Neuroimage Analysis Lab]]
----
* August 12-13: [[QtAugust2010| Review of Qt port]]
* August 11: [[2010-Slicer-UNCDuke|Slicer training event at UNC and Duke]]
* August 10: [[2010-Sato-talk|Research retreat of SNR Laboratory, followed by Dr. Yoshinobu Sato's talk]]
* August 5: [http://www.termine-meduniwien.at/mediafiles/38/Vortragsankuendigung_Prof_Ron_KIKINIS_05082010.pdf?sid=4f2a2b592fc7004cea39a34993b1d72d Presentation at the AKH, Vienna]
----
* July 1: [[2010-Slicer-StLouis|Slicer training event in St. Louis]]
----
* June 26: [[2010_CARS| NA-MIC Tutorial at the Computer Assisted Radiology and Surgery Conference in Geneva, Switzerland]]
* June 21-25: '''[[2010_Summer_Project_Week|Summer Project Week at MIT]]'''
* June 18: [[2010_CCA_Retreat|Clinical Computational Anatomy one day retreat in Boston]]
----
* May 20-23:[[cscbce_2010 | 5th Canadian Student Conference
on Biomedical Computing and Engineering]]
* May 17-21: [http://www.commontk.org/index.php/CTK-Hackfest-May-2010 CTK Hackfest at Georgetown University]
* May 12: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Registration Hands-On Workshop] at Countway Library, Harvard Medical School
----
* April 28: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Visualization Hands-On Workshop] at Countway Library, Harvard Medical School
* April 29: [[2010_Slicer36_Module_Cull|Review of modules to keep and cull for the 3.6 release]]
* April 9-10: [[2010_University.of.Iowa| NA-MIC Training Workshop at the University of Iowa ]]
* April 7: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Registration Hands-On Workshop] at Countway Library, Harvard Medical School
----
* March 24: [http://catalyst.harvard.edu/services/imagingcourses.html 3D Slicer Medical Image Data Visualization Hands-On Workshop] at Countway Library, Harvard Medical School
* March 19: [[U-Tokyo-visit-03192010| NCIGT Workshop with delegates from University of Tokyo]] at Brigham and Women's Hospital
* March 16: [[Events:Slicer-Hands-On-Tokyo-2010| Image Guided Therapy research using 3D Slicer - Hands-On Workshop at Tokyo Women's Medical University, Tokyo, Japan (page in Japanese)]]
* March 10: [http://summit2010.amia.org/session-details NA-MIC Presentation at AMIA 2010]
* March 9: Registration Clinic at [http://www.ncigt.org/pages/IGT_Workshop_2010 IGT Workshop, Arlington, VA]
* March 7-10: Several NA-MIC personnel are participating in [[Events:CTK-Pre-Hackfest-2010|The CTK Pre-Hackfest]] in Heidelberg, Germany. This meeting is a kick off that is expected to lead to active working meetings similar to the NA-MIC Project Week activities. The meeting is organized by the [http://commontk.org CTK] group.
* March 3: Steve Pieper presents on "Visualizing Anatomy and Function from MRI Data" at [http://vizbi.org/2010/ the 2010 EMBO Workshop on Visualizing Biological Data]. NA-MIC Wiki page with [[VIZBI2010|Supplemental information from the VIZBI Conference]]. [http://www.nature.com/nmeth/journal/v7/n3s/index.html A special edition of Nature Methods] contains papers by the presenters.
----
* February 24: [[CTSC:Slicer_handson.022410| 3D Slicer Medical Image Data Visualization Hands-On Workshop]] at Countway Library, Harvard Medical School
* February 14: [[Events:CTK-Workshop-SanDiego-2010| 4th CTK workshop]] at SPIE in San Diego, CA
* February 9: [[Hata_BBN_visit|Hata BBN lecture]]
----
* January 4-8: '''[[AHM_2010|AHM, EAB, Winter Project Week in Salt Lake City]]'''

==2009==
* December 16-17: [[Dec-2009-SlicerAIMBrainstorming|Slicer Annotation and Markup Brainstorming]]
* December 15: [[Dec-2009-SlicerXND-DesignAndEngineering | Slicer/XND Preliminary Design & Engineering Planning Session at WUSTL]]
* December 1: [[Events:RSNA_CTSA_2009| CTSA at RSNA]]
----
* November 30: [[Events:RSNA_2009| 3-D Interactive Visualization of DICOM images with Slicer - RSNA 2009]] 95th Annual Meeting of the Radiological Society of North America, Chicago, IL
* November 29: [[Events:CTK-Workshop-Chicago-2009| 3rd CTK workshop]] at RSNA in Chicago
* November 23: [[CTSC:Slicer_handson.112309| 3D Slicer Medical Image Data Visualization Hands-On Workshop]], Countway Library, Harvard Medical School, room 403, 12-1pm
----
* October 16: [[SFN2009 Slicer DTI Workshop | Mapping the Brain with Diffusion Tensor Imaging - A Hands-On Workshop]] [http://www.sfn.org/am2009/ Annual Meeting of the Society of Neuroscience, Chicago, IL]
* October 9: [[Events:VT-NAMIC-NCBC-Collaboration-meeting-2009| VirginiaTech-NA-MIC collaboration progress update and planning meeting]], Surgical Planning Laboratory, 1249 Boylston Street, Boston, MA
----
* September 30: [[CTSC:ACRIN 09/30/09| Quantitative imaging workshop]] ACRIN fall meeting, Arlington, VA. Workshop in collaboration with Duke University and Johns Hopkins.
* September 25: [[Events:CTK-Workshop-September-2009| 2nd CTK workshop, Oxford UK]]
* September 24: [http://campwww.informatik.tu-muenchen.de/AMIARCS09/doku.php Augmented Environments for Medical Imaging including Augmented Reality in Computer-Aided Surgery (AMI ARCS)] MICCAI 2009 workshop, London, UK. Demonstration of the [[DBP2:JHU:PerkStation | Perk Station]]. One-on-one tutorial available [mailto:lasso@cs.queensu.ca on request].
* September 24: [http://smarts.lcsr.jhu.edu/CAI-Workshop-2009 Systems and Architectures for CAI] MICCAI 2009 workshop, London, UK. Presentation of the [[DBP2:JHU:Roadmap | computer assisted intervention plug-in module for 3D Slicer]].
* September 24: [http://www.cs.ucl.ac.uk/miccai/dmfc Diffusion Modelling and the Fibre Cup] MICCAI 2009 workshop, London, UK. Presentation of the DTI tractography validation pilot study.
* September 20-24: [http://wiki.na-mic.org/Wiki/index.php/2009_prostate_segmentation_challenge_MICCAI Prostate MRI Segmentation Challenge"] at [http://grand-challenge2009.bigr.nl/index.php MICCAI 3D Segmentation in the clinic: a grand challenge].
* September 20: [http://lmi.bwh.harvard.edu/DMRI09 MICCAI 2009 Tutorial in London: Trends in High Angular Resolution Diffusion Imaging and Brain Tissue Modelling]
* September 20: [http://people.csail.mit.edu/pohl/pmmia09.html MICCAI 2009 Workshop: Probabilistic Models for Medical Image Analysis]
* September 20: MICCAI Workshop on Information theoretic similarity measures for image registration and segmentation
* September 16-17: [[Sept-2009-SlicerWidgetsBrainstorm|Brainstorming Session on next generation widgets for Slicer]]
----
* August 25: [[Events:Slicer_Workshop_August_2009|Slicer Workshop]] at [http://www.ibmisps-worldcongress.org/precongress.asp IBMISPS], Surgical Planning Laboratory, 1249 Boylston Street, Boston, MA
* August 21: [[Events:Registration_Summit_August_2009|Registration Meeting]], Surgical Planning Laboratory, 1249 Boylston Street, Boston, MA
----
* June 29: [[Events:CTK-Workshop-June-2009|Common Toolkit Workshop]] at the [http://www.dkfz.de/index.html DKFZ] in Heidelberg, Germany hosted by the [http://www.dkfz-heidelberg.de/en/mbi/index.html MBI].
* June 28: [http://www.biomedicalimaging.org/2009/Tutorial_04.asp Tutorial on Statistical Shape Analysis: Theory, Software, and Applications] at [http://www.biomedicalimaging.org/2009/default.asp ISBI 2009], Boston, MA.
* June 25: [[Events:TutorialContestJune2009 | Summer 2009 Tutorial Contest]]
* June 22-26: '''[[2009_Summer_Project_Week|The FIRST JOINT Summer Project Week at MIT]]'''
* June 17: [[CAOS2009_Slicer Workshop| Hands-On Workshop for Slicer IGT for Computer Aided Orthopeadic Surgery]]
* June 17: [[SlicerKyusyuJune2009Lecture| Lecture and demonstration, Image Guided Therapy of abdominal organs, N Hata, at Kysyu University Medical School, Kyusyu, Japan]]
* June 16: [[SlicerNagoyaJune2009Workshop| Workshop: How to make your custom IGT software using 3D Slicer, N Hata, Nagoya Institute of Technology, Nagoya, Japan]]
----
* May 11-12: Core 1 PI meeting at Georgia Tech.
* May 8: [http://www.na-mic.org/Wiki/index.php/IMFAR2009 IMFAR 2009] - [http://www.autism-insar.org/index.php?option=com_content&task=view&id=36&Itemid=105 Presentation at the 8th Annual International Meeting for Autism Research (IMFAR) in Chicago, IL] entitled Use of the Slicer3 Toolkit to Produce Regional Cortical Thickness Measurement of Pediatric MRI Data".
* May 8: Focus session on [[Volume Rendering and Loadable Modules: (Engineering & Usability Notes)]].
* May 4-5: Core 1 / Core 2 visit at Georgia Tech ([[May 4, 2009 Notes]], [[May 5, 2009 Notes]]).
----
* March 19: [[NCI Slicer Tutorial 03-19-2009|NCI Slicer tutorial, ]] We had to reschedule! New date TBD!
* March 4: [[2009-03-04-Editor-Usability|Interactive Editor usability]] session in Rons office
----
* February 24: 1249 Boylston: [http://www.slicer.org/slicerWiki/index.php/Slicer3:Using3.4 Afternoon session to walk through common Slicer3.4 usage scenarios]
* February 24: BWH (location: Mellins Library) [[BWH_RadiologyResident_Training2009.1| NA-MIC 3D Slicer 3.2 Hands-On Workshop]]
* February 17-20: [[GWE_MiniRetreat|GWE Mini Retreat]], Boston
----
* January 28-30: [http://www.slicer.org/slicerWiki/index.php/Slicer3:MiniRetreat_January_28-30,2009 Slicer3 MiniRetreat]
* January 7: [[Events:TutorialContestJan2009| Winter 2009 Tutorial Contest]]
* January 5-9: '''[[AHM_2009| AHM,]] [[2009_EAB|EAB,]] [[2009_Winter_Project_Week|Winter Project Week in Salt Lake City]]'''

== 2008 ==
* December 15-16: [[2008_Engineering_review_at_UNC|2008 Engineering review at UNC]], Chapel Hill
* Fall Semester 2008 Ibanez and Schroeder teach [http://public.kitware.com/OpenSourceSoftwarePractice/index.php/Main_Page Open Source Software Course] at Rensselaer Polytechnic Institute
* December 8-12: [[2008_IGT_Project_Week|IGT Hands-on Project Week]], Boston
* December 1: [[Events:RSNA2008| Tutorial at RSNA]], [http://rsna2008.rsna.org/ RSNA conference website]
----
* November 15-19: [[NA-MIC_Lupus_DBP_Worskhop_SFN2008|NA-MIC Lupus DBP White Matter Lesion Tutorial Release at 2008 Society for Neuroscience Annual Meeting, Washington, DC]]
* November 18: [[Slicer3_Q&A_2008-11-18|Slicer Q&A Session at BWH]]
* November 4: [[NA-MIC_3D_Visualization_Workshop_Massachussetts_General_Hospital|NA-MIC 3D Visualization Workshop at Massachusetts General Hospital, Boston, MA]]
----
* October 30 : [[NA-MIC_3D_Visualization_Workshop_Brigham_and_Women's_Hospital| NA-MIC 3D Visualization Workshop at Brigham and Women's Hospital, Boston, MA]]
* October 28: [[Harvard_Medical_Education_Day | Harvard Medical Education Day, Boston, MA]]
* October 15-16: [[Robarts_Training_Session | NA-MIC kit training event at The University of Western Ontario]], London, Ontario, Canada
* October 21: Nobuhiko Hata gave a talk entitled "Role of Image Processing, Navigation and Robots in MRI-guided Intervention", at the Bioimaging Sciences Division, Department of Radiology, Yale University School of Medicine, New Heaven, CT
* October 17: Nobuhiko Hata gave a talk entitled "Role of Image Processing, Navigation and Robots in MRI-guided Intervention", at Robarts Institute, University of Western Ontario, Ontario, Canada
* October 7: [[Stefan_Baumann_visit | Stefan Baumann from Novartis will present at 1249 Boylston]]
* October 7: [[Slicer_Day_October_2008|Slicer in the Fall]], 1249 Boylston, Boston MA
----
* September 10: [[Miccai_2008_Tutorial| Interfacing third-party software with the NA-MIC Kit]]: Tutorial at MICCAI 2008, New York City
* September 10: [[Miccai_2008_Prostate_Workshop| Prostate image analysis and computer-assisted intervention]]: Workshop at MICCAI 2008, New York City
* September 6: [[Miccai_2008_Systems_and_Architecture_Workshop| Systems & architecture for computer a

== 2007 ==
* December 12-14: [[2007_December_Slicer_IGT_Programming|Slicer IGT Programming Event]]
----
* November 2: [http://www.insightsoftwareconsortium.org/wiki/index.php/2007_MICCAI_Open_Workshop Third Annual Open Source Workshop at MICCAI]
----
* October 16-17: [http://nbirn.net/about/current/ahm2007.shtm BIRN AHM] Query Atlas and Qdec interfaces in Slicer 3 presented at the BIRN AHM.
* October 14-20: [[2007_October_Collaboration_Visit_Robert_Israel|Robert Israel Collaboration Visit to the Surgical Planning Laboratory]]
** [http://wiki.na-mic.org/Wiki/index.php/Slicer3:Module:QueryAtlas See this page] for links to QueryAtlas slides, movies and example datasets.
** [http://wiki.na-mic.org/Wiki/index.php/Image:Slicer3QDEC_AHM2007.ppt See this page] for links to Qdec slides.
* October 1-2: [[SanteFe.Tractography.Conference | Contrasting Tractography Methods Conference, Santa Fe]]
----
* September 12: [[Engineering:September 12, 2007 | Engineering End of Summer Meeting]]
* September 11: [[GPU.Enabled.Tools.Meeting | GPU-enabling of NA-MIC Algorithms, Boston]]
----
* August 21: [[DBP2:UNC:Cortical Thickness Roadmap | UNC DBP Roadmap Tcon]]
----
* June 25-29: '''[[2007_Programming/Project_Week_MIT|Summer Project Week at MIT]]'''
* June 9: [[Training:OHBM2007_Training_Workshop|OHBM DTI Training Workshop, Chicago]]
* June 1: [[2007_Pohl_at_CCB|Pohl Talk at CCB: A Hierarchical Segmentation Algorithm for MR Brain Images]]
----
* May 29-31: [[2007_Core_1_Meeting|Annual Core 1 Workshop, Boston]]
----
* April 24: Steve Pieper presented Slicer3 and the NA-MIC Kit to the [http://gray.mgh.harvard.edu/content/index.php Medical Physics group at MGH] [http://wiki.na-mic.org/Wiki/images/9/9c/Pieper-MGH-medical-physics-2007-04-24.ppt (slides)]
----
* March 29-30: [http://www.slicer.org/slicerWiki/index.php/Slicer3:MiniRetreat_March_29%2C_30%2C_2007 Slicer3 Mini-Retreat, Boston]
----
* February 21-22: Vince Calhoun from MIND is visiting at MIT and MGH [http://www.csail.mit.edu/events/eventcalendar/calendar.php?show=event&id=1349 Talk announecement]
* February 3 and 10, 2007: [http://mri.radiology.uiowa.edu/mediawiki/index.php/ITK_Programming_Short_Course_-_Feb_2007 Iowa ITK Programming Short Course]
* February 7-8: [http://www.slicer.org/slicerWiki/index.php/Slicer3:MiniRetreat Slicer3 Mini-Retreat, Boston]
----
* January 29: [[P41-2007-Joint-Retreat | CFIT NAC P41 2007 Joint Retreat]]
* January 16: [[2007-01-16 Core 5, Core 6 Summit]]
* January 10-12: '''[[AHM_2007|AHM, EAB, Winter Project Half Week in Salt Lake City]]'''

== 2006 ==
* December 12: [http://www.slicer.org/slicerWiki/index.php/Slicer3:Alpha-release Slicer3 retreat at Kitware]
----
* November 15: [http://www.slicer.org/slicerWiki/index.php/Slicer3:Usability Usability session with PNL at BWH]
* November 7-8: [[2006_November_Meshing_Project_Visit| Meshing Collaborator Project Visit to BWH]]
* November 1: [[Training:User_Workshop_Fall_HCNR_2006| NA-MIC Training Workshop at the Harvard Center for Neurodegeneration and Repair, Boston.]]
----
* October 26: [[Oct-26-2006-MIND-visit_Visiting_the_MIND_institute|New DBP MIND Institute Visit]]
* October 23-26: [http://www.nbirn.net/press/current/ahm2006.shtm <nowiki>| BIRN All Hands Meeting</nowiki>]
* October 19-20: [[IGT:October_2006_IGT_Workshop| NCIGT and NA-MIC Workshop on Open System Architectures for Image-Guided Therapy]]
* October 17: [[Core1-3-meeting-2006|Coordination meeting]] between Core 1 and Core 3 to plan the specifics for the third and last year of the current DBP's
* October 1: [http://www.insightsoftwareconsortium.org/wiki/index.php/2006_MICCAI_Open_Workshop MICCAI_2006 Open Source Workshop at MICCAI 2006, Copenhagen]
----
* September 19-20: [[2006_September_Slicer3_Update| Slicer 3 Update Meeting in Boston]]
* September 14-15: We have been invited to participate in [http://usms.nist.gov/workshops/bioimaging.htm NIH Workshop on Standards in Change Measurement]. This workshop will potentially set the stage for additional workshops that focus on Image Guided Interventions and Open Source standards.
* September 6: [http://www.ibmisps.org/pdf/InformationparticipantsANGLAIS.pdf 2006 IBMISPS conference:] [[Media:Kikinis-IBMISPS-09-06-2006.ppt|talk]] by [[media:Kikinis-FOSS.ppt|R. Kikinis on FOSS]] ([[2006 FOSS Abstract Kikinis]])
----
* July 19: [[Training:NLM_Workshop_2006| NA-MIC Training Workshop at NLM]]
* July 17-19: [[NIH:_2006_All_NCBC_Meeting| All NCBC All Hands Meeting at NIH]]
* July 13-14: [http://bsp.csie.nctu.edu.tw/lssa06/ 2nd IEEE-NLM International Life Science Systems and Applications Workshop, Lister Hill Auditorium, NIH, chaired by Stephen Wong, co-sponsored by IEEE, NLM, and NAMIC]
* July 2: Ron Kikinis [[Media:NA-MIC-Kit-07-01-2006.ppt| presentation]] (28MB ppt file) at the [http://www.future-cad.org/fcad/Docs/CFP_for_2nd_Int_Sympo_2006_ver3.2.pdf The 2nd International Symposium on Intelligent Assistance in Diagnosis of Multi-Dimensional Medical Images ]
----
* June 26-30: '''[[2006_Programming/Project_Week_MIT|Summer Project Week at MIT]]'''
* June 8-9: [[Georgia_Tech_visit_to_UNC%2C_June_8-9|Georgia Tech visit to UNC: Shape Analysis Discussion]]
* June 5: [http://www.slicer.org/slicerWiki/index.php/Slicer:Slicer3-June-5-2006-Retreat Slicer 3 Retreat]
----
* May 30: [http://www.cimit.org/forum/forum.html CIMIT Forum] with Steve Pieper and Luis Ibanez ([[Media:CIMIT-BIRN-update-2006-05-30.ppt| Steve's Slides]])([[Media:CIMIT-2006-IGSTK-InsightJournal.ppt| Luis' Slides]])
* May 26: [[Training:DTI_Workshop|UNC-Chapel Hill NA-MIC DTI Analysis Training Workshop]]
* May 23-24: [[Algorithms:Core1Visit_May06| NA-MIC Core 1 meeting at UNC]]
* May 19: [[Slicer:StevePieper_RonKikinis_VisitToDartmouth_051906|Steve Pieper and Ron Kikinis Visit to Dartmouth]]
* May 15: [[DBP:Harvard:Collaboration:GTech#Progress|Delphine Nain at the PNL]]
----
* April 27: [[Training:NIH_Workshop_2006|NA-MIC Training Workshop at NIH]]
* April 24: [http://www.nimh.nih.gov/neuroinformatics/springagenda2006.cfm The Human Brain Project: Linking Within and Beyond] Natcher Conference Center, NIH Campus, Bethesda, Maryland: National Alliance for Medical Image Computing: Science & Technology of One National Center for Biomedical Computing [[Media:NA-MIC_Kit_revised.ppt| (this is a slightly modified version of the presentation)]]
* April 12-13: [[DBP:Harvard:Collaboration:Toronto|James Kennedy and Aristotle Voineskos at the PNL]]
* April 10-11: [[Training:MIND_Institute_Workshop_Spring_2006| NA-MIC Training Workshop at MIND Institute, New Mexico]]
* April 10-11: Steve Pieper presented the NA-MIC Kit at [http://www.biomedicalimaging.org ISBI] 2006 on April 7, 2006 ([[Media:NA-MIC-2006-04-07-ISBI.ppt| Slides]], [[Media:Pieper-ISBI-2006-revised.pdf| Paper]]).
* April 3-4: [http://www.slicer.org/slicerWiki/index.php/Slicer3:_Alpha1_Meeting Design Review and Work meeting on Slicer3 (alpha1 release)]
----
* February 22-24: [[Engineering:Slicer3_and_GPU| Meeting at Kitware to discuss Slicer3 (Thursday) and GPU programming (Friday)]]
* February 22: [[DBP:Sylvain_Doug_visit_Dartmouth_Feb_22_2006|Sylvain Bouix to visit Dartmouth]]
* February 20-23: [[IGT:Workshop_Feb_2006|IGT and FUS Workshops]]
----
* January 24: [[Training:User_Workshop_SPL_Winter_HCNR_2005| HCNR User Training Workshop at the Surgical Planning Laboratory, Boston, MA]]
* January 8-13: '''[[AHM_2006:AHM_2006| AHM, EAB, Winter Project Week in Salt Lake City]]'''

== 2005 ==
* December 20: [[DBP:Marek_Kubicki_visit_Dartmouth_December_20_2005| Marek Kubicki visit to Dartmouth]]
* December 17: [[Collaboration:GT-UCI| Jim Fallon from UC Irvine visit to Georgia Tech for work on Rule-Based Segmentation]]
* December 14: [[DBP:Andy_Saykin_visit_BWH_December_14_2005|Andy Saykin and Group visit to Brigham and Women's Hospital]]
* December 1: [[DBP:Dartmouth_Harvard_Slicer_Training_12_01_2005| Dartmouth Group Slicer Training Followup at Harvard, 1249 Boylston]]
----
* November 27-December 2: [http://rsna2005.rsna.org/rsna2005/V2005/index.cvn RSNA 2005, Chicago: Slicer session at the Open source imaging tools workshop]
* November 18: [[DBP:Harvard:Collaboration:GTech#Progress|Ramsey Al-Hakim at the PNL]]
* November 17-18: [[Collaboration:GT-Kitware|John Melonakos at Kitware -- Bayesian Classification Filter addition to ITK]]
* November 16: [[IGT:2005_Nov_16_IGT_Consortium_Kickoff| IGT Consortium Kickoff]]
* November 16: [[Collaboration:UNC-UCI|Jim Fallon and Martina from UC Irvine visit to UNC on DTI tools and clinical projects]]
* November 15: [[Engineering:Slicer3.0_November_15_2005| Slicer 3.0 Meeting at Surgical Planning Laboratory, Boston, MA]]
----
* October 29: [[Dissemination:MICCAI_Workshop_2005|ISC and NA-MIC Workshop on Open Source Toolkits, Applications, and their uses in Medical Image Analysis at MICCAI]]
* October 29: Informal NA-MIC Lunch at MICCAI, Palm Springs, CA
* October 20: [[2005_AHM:_3D_Slicer/Freesurfer_Workshop|Slicer Training Workshop, AHM BIRN San Diego, California]]
* October 7: [[Collaboration:UNC-PNL|UNC visit at the Psychiatry NeuroImaging Laboratory]]
* October 5-7: [[Dissemination:EPFL_Workshop_2005|Swiss Federal Institute of Technology (EPFL), Lausanne, Switzerland: Advanced ITK and Slicer Workshop]]
----
* September 30: [[Training:User_Workshop_SPL_Fall_2005|User Training Workshop in the Surgical Planning Laboratory, Boylston St, Boston, MA]]
* September 26-28: [[Engineering:Core_3_Programming_Week#1_Feedback|DBP and Engineering Session on Feedback from Programming Week Projects, and Planning the next 6-months]]
* September 16: [[Training:User_Workshop_MGH_Summer_2005| User Training Workshop at MGH]]
----
* August 11: [[Dissemination:CSB2005|Invited Lecture about NA-MIC.]]
----
* July 20: [[Collaboration:Workshop_July_20_2005|UNC visit of Georgia Tech for collaborative work on shape and DTI algorithms]]
----
* June 27-July 1: [[Engineering:Programmers_Week_Summer_2005| '''Summer Project Week at MIT''']]
* June 22-23: [[Dissemination:NCRR_NIBIB_PI_Meeting_June_22-23_2005|NCRR/NIBIB PI Meeting]]
* June 16-19: [[Collaboration:Workshop_June_16-19_2005|Georgia Tech visit of UC-Irvine for collaborative work on anatomically accurate algorithms.]]
----
* May 26-27: [[Dissemination:Workshop_May_26-27_2005|User Training and Dissemination Workshop at Dartmouth]]
----
* April 21-22: [[DBP:Andy_Saykin_visit_BWH_April_21_2005| Andy Saykin visit to Brigham and Women's Hospital and MIT]]
----
* March 25: University of Utah visit of Harvard VA for collaborative work on DTMRI.
* March 21-23: [[FBIRN:retreat2005|fBIRN Retreat in Irvine with User Tutorials for Slicer, Brains2 Wednesday on March 23]]
----
* February 20-22: [[AHM_2005:Main|'''The First All-Hands-Meeting and Programming Event in Salt Lake City, Utah''']]
* February 17-18: [[Dissemination:Workshop_Feb17-18_2005| Dissemination Workshop at UCSD]]
----
* January 26: Slicer User Workshop at BWH: [http://www.slicer.org/slicerWiki/index.php/Slicer:User_Workshop_Jan26 Information for Atendees]
* January 24-25: Dissemination Workshop at [[Dissemination:Workshop_Jan24-25_Boston|Agenda]], [[Dissemination:Workshop_Jan2005_Interested_Attendee_List|List of Participants]], [[Talk:Dissemination:Workshop_Jan24-25_Boston_Feedback|Attendee Feedback]]
* January 17-18: [http://www.imaginggenetics.uci.edu First International Imaging Genetics Conference] at the Beckman Center of the National Academy of Sciences in Irvine, CA.

== 2004 ==

* December 9-10: Dissemination Workshop in the Surgical Planning Laboratory, BWH: [[Dissemination:Workshop_Dec9-10_Boston|Agenda]], [[Dissemination:Workshop_Dec9-10_Boston_Presentations|Presentations]], [[Dissemination:Workshop_Dec9:10_Attendees_List|List of Participants]], [[Dissemination:Workshop_Dec9:10_Summary|Summary]], [[Talk:Dissemination:Workshop_Dec9-10_Boston_Feedback|Attendee Feedback]]
----
* November 16: Dissemination Meeting: [[Dissemination:Kickoff_Agenda|Agenda]], [[Dissemination:Kickoff_Summary|Summary]]
----
* October 15: [[Kickoff:Main| NA-MIC Kickoff Meeting]]

===Testing Google Calendar===

[http://www.google.com/calendar/embed?src=r8bddigidepgvog24cpfk1bjgs%40group.calendar.google.com&ctz=America/New_York NA-MIC Calendar on Google]

2013 Project Week:CARMA PractialLASeg

2013-01-11T14:14:07Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2013_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod

[[File:CarmaWorkflowSlide.jpeg|thumb|center|Workflow Overview]]

Automatic segmenation of the left atrium (LA) from LGE-MRI images continues to be challenging to automate. Recent work by Ross and Gopal looks promising, but will require further validation and some significant work to implement in Slicer in a useful format for CARMA technicians. In the meantime, we propose to explore some new approaches to a semi-automated segmentation, with the goal of reducing the necessary time for the manual process (the process is described in [[File:carmaWorkflowV2.pdf | carmaWorkflowV2.pdf]]).

CARMA has recently begun to acquire fully gated MRA images, along with the LGE-MRI protocol. Gated MRA can produce much sharper blood pool boundaries (LA endocardium) than standard, 1-pass MRA and may prove valuable for localizing endocardial contours.

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
The objective of this project is to collaboratively brainstorm and (ideally) implement a semi-automated LA segmentation workflow (wizard?) within slicer. We plan to take advantage of available Slicer experts and provide a wish list to Slicer engineers of any missing pieces -- or nice to have features -- necessary for our proposed workflow.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
# Explore the use of Slicer to perform semi-automated segmentation of the LA Endocardium using gated MRA aligned with LGE-MRI
# Identify missing segmentation tools that may be useful in a proposed segmentation workflow (e.g. 3D editing?)
# Plan (or implement if time permits) a workflow (wizard) within CARMA based on what we learn from objectives 1-2

</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
We decided that the first step will be to create a Slicer tutorial and then map this tutorial into a workflow module. Work is underway to port some existing CARMA tutorial materials to a Slicer-based tutorial.
</div>
</div>

2013 Winter Project Week

2013-01-11T14:11:02Z

Cates: /* Atrial Fibrillation */

Back to [[Project Events]], [[Events]]
Back to [[Project Events]], [[AHM_2013]], [[Events]]

__NOTOC__
[[image:PW-SLC2013.png|300px]]

Project Week is a hands on activity -- programming using the open source [[NA-MIC-Kit|NA-MIC Kit]], algorithm design, and clinical application -- that has become one of the major events in the NA-MIC, NCIGT, and NAC calendars. It is held in the summer at MIT, typically the last week of June, and a shorter version is held in Salt Lake City in the winter, typically the second week of January.

Active preparation begins 6-8 weeks prior to the meeting, when a kick-off teleconference is hosted by the NA-MIC Engineering, Dissemination, and Leadership teams, the primary hosts of this event. Invitations to this call are sent to all na-mic members, past attendees of the event, as well as any parties who have expressed an interest in working with NA-MIC. The main goal of the kick-off call is to get an idea of which groups/projects will be active at the upcoming event, and to ensure that there is sufficient NA-MIC coverage for all. Subsequent teleconferences allow the hosts to finalize the project teams, consolidate any common components, and identify topics that should be discussed in breakout sessions. In the final days leading upto the meeting, all project teams are asked to fill in a template page on this wiki that describes the objectives and plan of their projects.

The event itself starts off with a short presentation by each project team, driven using their previously created description, and allows all participants to be acquainted with others who are doing similar work. In the rest of the week, about half the time is spent in breakout discussions on topics of common interest of subsets of the attendees, and the other half is spent in project teams, doing hands-on programming, algorithm design, or clinical application of NA-MIC kit tools. The hands-on activities are done in 10-20 small teams of size 3-5, each with a mix of experts in NA-MIC kit software, algorithms, and clinical. To facilitate this work, a large room is setup with several tables, with internet and power access, and each team gathers on a table with their individual laptops, connects to the internet to download their software and data, and is able to work on their projects. On the last day of the event, a closing presentation session is held in which each project team presents a summary of what they accomplished during the week.

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].
= Dates.Venue.Registration =

Please [[AHM_2013#Dates_Venue_Registration|click here for Dates, Venue, and Registration]] for this event.

= [[AHM_2013#Agenda|'''AGENDA''']] and Project List=

Please:
* [[AHM_2013#Agenda|'''Click here for the agenda for AHM 2013 and Project Week''']].
* [[#Projects|'''Click here to jump to Project list''']]

=Background and Preparation=

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].

Please make sure that you are on the [http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]

=Projects=
* [[2013_Project_Week_Template | Template for project pages]]

==TBI==
* [[4D DTI tractography in Slicer for TBI | Coregistration of structural and diffusion MRI towards 4D modeling of TBI]] (Bo Wang, Andrei Irimia, Micah Chambers, Jack Van Horn, Marcel Prastawa, Guido Gerig)
* [[Clinically oriented structural, connectomic and functional analysis of traumatic brain injury in 3D Slicer]] (Andrei Irimia, Bo Wang, Micah Chambers, Jack Van Horn, Marcel Prastawa, Guido Gerig)
* [[UKF Tractography in Slicer 4]] (Ryan Eckbo, Yogesh Rathi, Demian Wassermann, C.F Westin, Ron Kikinis)
* [[4D DTI analysis via longitudinal modeling of tract diffusivities]] (Anuja Sharma, Bo Wang, Andrei Irimia, Micah Chambers, Jack Van Horn, Marcel Prastawa, Guido Gerig)

==Atrial Fibrillation==
* [[2013_Project_Week:CARMA_Scar_Segmentation|Scar Identification (LiangJia Zhu, Yi Gao, Josh Cates, Rob MacLeod, Allen Tannenbaum)]]
* [[2013_Project_Week:CARMA_PV_Antrum_Cut|SLICER MODULE: PV Antrum Cut Filter (Salma Bengali, Alan Morris, Josh Cates, Rob MacLeod)]]
* [[2013_Project_Week:CARMA_LA_Seg_Gopal|SLICER MODULE: Automated LA Segmentation by Gopal (Gopal Veni, Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod)]]
* [[2013_Project_Week:CARMA_2D_Dilate|SLICER MODULE: 2D Dilate Filter (Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod)]]
* [[2013_Project_Week:CARMA_PractialLASeg|SLICER WORKFLOW: Practical Manual LA Segmentation in Slicer (Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod)]]
* [[2013_Project_Week:CARMA_Isolated_Connected_Filter|SLICER MODULE: Isolated Connected Image Filter (Salma Bengali, Alan Morris, Josh Cates, Rob MacLeod)]]
* [[2013_Project_Week:CARMA_Connected_Threshold_Filter|SLICER MODULE: Connected Threshold Image Filter (Salma Bengali, Alan Morris, Josh Cates, Rob MacLeod)]]

==Slicer4 Extensions==
* [[2013_Project_Week:DTIExtension|Diffusion Tensor Images processing tools as Slicer4 extensions (Adrien Kaiser, Francois Budin, Martin Styner)]]
* [[2013_Project_Week:SPHARMExtension|SPHARM-PDM as Slicer4 extension (Beatriz Paniagua, Francois Budin, Martin Styner)]]

==Huntington's Disease==
* [[2013_Project_Week:QualityAssuranceModule|Quality assurance module enhancements]] (Dave Welch, Hans Johnson)
* [[2013_Project_Week:PythonModules|Slicer interface to add Python modules to Slicer environment]] (Dave Welch)
* [[2013_Project_Week:FastFiducialRegistrationModule|Fast fiducial registration module]] (Dave Welch, Nicole Aucoin)
* [[2013_Project_Week:4DShapeAnalysis | 4D shape analysis: application to HD]] (James Fishbaugh, Marcel Prastawa, Hans Johnson, Guido Gerig)

==Head and Neck Cancer==
* [[2013_Winter_Project_Week:MABS|Multi atlas-based segmentation]] (Sharp, Shusharina, Golland)
* [[2013_Winter_Project_Week:Hybrid_registration|Hybrid interactive-automatic registration]] (Shusharina, Sharp, Pieper)
* [[2013_Winter_Project_Week:PointSetRegistration|Constrained Point Set Registration]] (Kolesov, Karasev, Sharp, Tannenbaum)
* [[2013_Winter_Project_Week:InteractiveSegmentation|Interactive Segmentation and Supporting Utilities]] (Karasev, Kolesov, Tannenbaum)

==Stroke==
* [[2013_Project_Week:WMH_Segmentation_for_Stroke|White Matter Hyperintensity Segmentation in Stroke (Adrian Dalca, Ramesh Sridharan, Polina Golland)]]
* [[2013_Project_Week:Imaging_Genetic_for_Stroke|Imaging Genetics for Stroke (Adrian Dalca, Kayhan Batmanghelich, Polina Golland)]]

==Image-Guided Interventions==
* [[2013_Project_Week:UnitedSlicerIGTExtension|United SlicerIGT extension, repository, website]] (Tamas Ungi, Junichi Tokuda, Adam Rankin)
* [[2013_Project_Week:BRAINSFit_new_features|BRAINSFit in ITK4: extra functionality and testing for prostate MR registration (Andrey, Hans)]]
* [[2013_Project_Week:PkModeling_for_prostate_DCE_MRI|PkModeling for prostate DCE MRI (Jim, Andrey)]]
* [[2013_Winter_Project_Week_Gyne_Brachy|iGyne Needle Digitalization]] (Alireza Mehrtash, Csaba Pinter, Tina Kapur, Guillaume Pernelle, Jan Egger, Neha Agrawal, Antonio Damato)
* [[2013_Project_Week:AbdominalNavigationModule|Abdominal navigation module]] (Junichi Tokuda, Atsushi Yamada)
* [[2013_Project_Week:MobileImageOverlay|Mobile image overlay augmented reality needle guidance]] (Tamas Ungi, Adam Rankin)
* [[2013_Project_Week:MRIAblation|Thermal monitoring tools for MRI-guided laser ablation therapy of brain tumor]] (Laurent Chauvin, Noby Hata, Hatsuho Mamata, Alex Golby)
* [[2013_Project_Week:US_IGT|Ultrasound Guidance for Neurosurgery]] (Matthew Toews, William Wells, Stephen Aylward, Tamas Ungi)

==Radiation Therapy==
* [[2013_Project_Week:DicomRtExport|SlicerRT: DICOM RT export]] (Kevin Wang, Greg Sharp, Csaba Pinter)
* [[2013_Project_Week:RtBeamGeometry|SlicerRT: Beam geometry widgets]] (Csaba Pinter, Greg Sharp)

==Medical Robotics==
* [[Configurable fiducial-based device to image registration]] (Junichi Tokuda, Nobuhiko Hata)
* [[2013_Project_Week:RobotizedUltrasoundProbeFor3DVolumeReconstruction| Robotized Ultrasound Probe For 3D Volume Reconstruction]] (Laurent Chauvin, Junichi Tokuda, Noby Hata)
* [[2013_Project_Week:AgileMedicalRobot | Agile medical robotics development with Slicer: Case study with MRI compatible robot(Taka Kato, Atsushi Yamada, Noby Hata, Kazuhumi Onuma)]]
* [[2013_Project_Week:InvestigatingRoleOfOpenSourceInTranslationalResearch | Investigating role of open source in translational research (Miki Kumekawa)]]

==NA-MIC Kit Internals==
*[[2013_Project_Week:WebbasedAnatomicalTeachingFramework|Web-based anatomical teaching framework for mi2b2]] (Daniel Haehn, Steve Pieper, Sonia Pujol, Randy Gollub, Rudolph Pienaar, Ellen Grant)
*[[2013_Project_Week:ITKv4Default|ITKv4 Default in Superbuild]] - [http://www.na-mic.org/Bug/search.php?project_id=3&sticky_issues=on&sortby=last_updated&dir=DESC&hide_status_id=80&tag_string=ITKv4 Issues] (Matt McCormick, Luis Ibanez, Hans Johnson, Jc, Bill Lorensen, Bradley Lowekamp)
*[[2013_Project_Week:MarkupsModule|Slicer4 Markups Module]] (Nicole Aucoin)
*[[2013_Project_Week:ColorHierarchies|Slicer4 Color Hierarchies]] (Nicole Aucoin)
*[[2013_Project_Week:PatientHierarchy|Slicer4 Patient Hierarchy]] (Csaba Pinter, Andrey Fedorov, Nicole Aucoin, Steve Pieper)
*[[2013_Project_Week:ScalarBar|Slicer4 Scalar bar improvements]] (Kevin Wang, Nicole Aucoin Csaba Pinter)
*[[2013_Project_Week:CliMatlabInterface|Slicer4 CLI Matlab interface]] (Kevin Wang, Steve Pieper, Csaba Pinter)
*[[2013_Project_Week:SelfTests|Slicer4 Self Test and Sample Data Refactor]] (Steve Pieper, Jim Miller, Jc)
*[[2013_Project_Week:SimplifyMRMLReference|Simplify MRML References]] - Issue [http://www.na-mic.org/Bug/view.php?id=2727 #2727] (Alex Yarmarkovich, Steve Pieper, Julien Finet ?, Jc ?)
*[[2013_Project_Week:SlicerIPythonIntegration|Integration of IPython]] (Jc, Hans Johnson, Dave Welch, Steve Pieper, Matt McCormick)
*[[2013_Project_Week:SlicerDebianPackage|Slicer Debian package]] (Jc, Dominique Belhachemi, Greg Sharp)
*[[2013_Project_Week:SimplifyRendererMouseInteraction|Simplify renderer window mouse interaction]] - Mailing list [http://slicer-devel.65872.n3.nabble.com/Left-mouse-button-changes-window-level-Is-it-good-tt4026815.html thread] (Csaba, Steve, Ron, Jc, Greg, Andriy)
*[[2013_Project_Week:SteeredRegistration|Interactive Registration for Image Guided Therapy]] (Dirk Padfield, Jim Miller, Steve Pieper, Kunlin Cao)
*[[2013_Project_Week:Threaded SimpleITK Modules|Threaded SimpleITK Modules]] (Brad Lowekamp, Steve Pieper)
*[[2013_Project_Week:Slicer Personal Cloud]] (Rui Li, Jim Miller)
*[[2013_Project_Week:XNATSlicer|XNATSlicer]] (Sunil Kumar, Dan Marcus, Steve Pieper, etc.)
*[[2013_Project_Week:PGP_Keysigning|PGP Keysigning]] (Matt McCormick, Luis Ibanez, Bradley Lowekamp)

2013 Project Week:CARMA RT MRI

2012-12-12T07:26:29Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Alan Morris, Ashvin George, Josh Cates, Rob MacLeod

[[File:CARMA_RT_MRI.png|thumb|center|Image Here]]

This project is likely a series of meetings with key OpenIGT parties to discuss CARMA progress in RT MRI and our software plans. We have some prototype code in Slicer for catheter tracking using special coils on the catheter and special MRI tracking sequence. We would like to discuss our project with other interested RT MRI and OpenIGT parties.

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* Meet with OpenIGT group and share CARMA progress and plans on RT MRI software
* Discuss options for CARMA contributions to OpenIGT
* More detailed meeting agenda(s) to follow
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>

</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>

</div>
</div>

File:CARMA RT MRI.png

2012-12-12T07:20:14Z

Cates:

2013 Project Week:CARMA RT MRI

2012-12-12T07:19:31Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Alan Morris, Ashvin George, Josh Cates, Rob MacLeod

[[File:CARMA_RT_MRI.png|thumb|center|Image Here]]

* SUMMARY HERE

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* Objective 1
* Objective 2
* etc.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
PLAN HERE
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
* Progress here
</div>
</div>

File:CARMA RTMRI1.png

2012-12-12T07:17:12Z

Cates:

2013 Project Week:CARMA PractialLASeg

2012-12-12T07:12:29Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod

[[File:TBD|thumb|center|IMAGE PLACEHOLDER]]

Automatic segmenation of the left atrium (LA) from LGE-MRI images continues to be challenging to automate. Recent work by Ross and Gopal looks promising, but will require further validation and some significant work to implement in Slicer in a useful format for CARMA technicians. In the meantime, we propose to explore some new approaches to a semi-automated segmentation, with the goal of reducing the necessary time for the manual process.

CARMA has recently begun to acquire fully gated MRA images, along with the LGE-MRI protocol. Gated MRA can produce much sharper blood pool boundaries (LA endocardium) than standard, 1-pass MRA and may prove valuable for localizing endocardial contours.

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
The objective of this project is to collaboratively brainstorm and (ideally) implement a semi-automated LA segmentation workflow (wizard?) within slicer. We plan to take advantage of available Slicer experts and provide a wish list to Slicer engineers of any missing pieces -- or nice to have features -- necessary for our proposed workflow.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
# Explore the use of Slicer to perform semi-automated segmentation of the LA Endocardium using gated MRA aligned with LGE-MRI
# Identify missing segmentation tools that may be useful in a proposed segmentation workflow (e.g. 3D editing?)
# Plan (or implement if time permits) a workflow (wizard) within CARMA based on what we learn from objectives 1-2

</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>

</div>
</div>

2013 Project Week:CARMA LA Seg Gopal

2012-12-12T06:59:33Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Gopal Veni, Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod, Ross Whitaker)

[[File:CARMA_GopalLASeg.png‎|thumb|center|Image Here]]

The goal of this project is to begin Slicer implementation and testing of Gopal and Ross' segmentation method: "Left atrial wall segmentation using intensity profile based feature detector and optimal graph-cuts." Our objective is to implement this method in Slicer. There are several fairly involved steps for the entire segmentation process, including
# An LA shape model building phase
# User input to identify the center of a region of interest
# Computation of the segmentation, given a new LGE-MRI image
# Surface reconstruction of the output point set and (optionally) scan-conversion of the surface mesh to a binary segmentation volume.

For the Winter Project Week, our team will focus on steps 2-3 of this pipeline, with the goal of implementing a command-line module to perform the processing. Step 1 of the process will be implemented in a future planned Slicer module, but for now we will use an existing model built from the the CARMA LA shape database (available through the Data section of the CARMA DBP Wiki page).

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
Our Project Week objective is to produce a preliminary version of the segmentation computation outlined in steps 2-3 above.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
We plan to implement this algorithm as a Slicer command-line module. Gopal has existing C++ code, but this code relies upon a 3rd party LGPL library for the Graph Cut algorithm. We will need to identify an alternative to this 3rd party code. Several other NAMIC partners have past projects requiring Graph Cuts, so there may be a solution available. We will investigate.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>

</div>
</div>

2013 Project Week:CARMA LA Seg Gopal

2012-12-12T06:59:03Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Gopal Veni, Salma Bengali, Greg Gardner, Alan Morris, Josh Cates, Rob MacLeod, Ross Whitaker)

[[CARMA_GopalLASeg.png‎g|thumb|center|Image Here]]
The goal of this project is to begin Slicer implementation and testing of Gopal and Ross' segmentation method: "Left atrial wall segmentation using intensity profile based feature detector and optimal graph-cuts." Our objective is to implement this method in Slicer. There are several fairly involved steps for the entire segmentation process, including
# An LA shape model building phase
# User input to identify the center of a region of interest
# Computation of the segmentation, given a new LGE-MRI image
# Surface reconstruction of the output point set and (optionally) scan-conversion of the surface mesh to a binary segmentation volume.

For the Winter Project Week, our team will focus on steps 2-3 of this pipeline, with the goal of implementing a command-line module to perform the processing. Step 1 of the process will be implemented in a future planned Slicer module, but for now we will use an existing model built from the the CARMA LA shape database (available through the Data section of the CARMA DBP Wiki page).

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
Our Project Week objective is to produce a preliminary version of the segmentation computation outlined in steps 2-3 above.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
We plan to implement this algorithm as a Slicer command-line module. Gopal has existing C++ code, but this code relies upon a 3rd party LGPL library for the Graph Cut algorithm. We will need to identify an alternative to this 3rd party code. Several other NAMIC partners have past projects requiring Graph Cuts, so there may be a solution available. We will investigate.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>

</div>
</div>

File:CARMA GopalLASeg.png

2012-12-12T06:48:41Z

Cates:

2013 Project Week:CARMA PV Antrum Cut

2012-12-12T06:37:14Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Salma Bengali, Alan Morris, Greg Gardner, Josh Cates, Rob MacLeod

[[File:CARMA_PV_AntrumCut.png|thumb|center|Project Goal: A Slicer Module to compute the endocardial surface minus pulmonary veins (the light blue region). Requires an input endocardial surface (orange) and wall segmentation (green).]]

The standard CARMA clinical MRI processing workflow involves several segmentation steps, and we seek to implement our entire workflow in Slicer. The goal of this project is to fill one of the current gaps in the processing pipeline, which is to produce an LA endocardial surface segmentation that includes only the antrum regions of the pulmonary veins. There are no image features that define this boundary, but we have developed some heuristic criteria. Given a completed LA wall segmentation and a completed endocardial segmentation (blood pool), we have developed a simple algorithm to automatically compute the endocardium with PV antrum regions. The goal of this project is to implement this algorithm in Slicer.

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
# Port existing CARMA C++ code for PV Antrum Cutting to command-line Slicer module
# Test and Document Module
# Deploy in CARMA Extension Module
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
We plan to package existing C++ code as a command-line module. There are no parameters for the algorithm, so the user interface will be relatively straightforward. Some work in advance of the Programmer's Week has already been done. By the end of the week, we expect to have a working module to deploy online through our CARMA Extension.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
* Progress here
</div>
</div>

2013 Project Week:CARMA PV Antrum Cut

2012-12-12T06:36:42Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Salma Bengali, Alan Morris, Greg Gardner, Josh Cates

[[File:CARMA_PV_AntrumCut.png|thumb|center|Project Goal: A Slicer Module to compute the endocardial surface minus pulmonary veins (the light blue region). Requires an input endocardial surface (orange) and wall segmentation (green).]]

The standard CARMA clinical MRI processing workflow involves several segmentation steps, and we seek to implement our entire workflow in Slicer. The goal of this project is to fill one of the current gaps in the processing pipeline, which is to produce an LA endocardial surface segmentation that includes only the antrum regions of the pulmonary veins. There are no image features that define this boundary, but we have developed some heuristic criteria. Given a completed LA wall segmentation and a completed endocardial segmentation (blood pool), we have developed a simple algorithm to automatically compute the endocardium with PV antrum regions. The goal of this project is to implement this algorithm in Slicer.

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
# Port existing CARMA C++ code for PV Antrum Cutting to command-line Slicer module
# Test and Document Module
# Deploy in CARMA Extension Module
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
We plan to package existing C++ code as a command-line module. There are no parameters for the algorithm, so the user interface will be relatively straightforward. Some work in advance of the Programmer's Week has already been done. By the end of the week, we expect to have a working module to deploy online through our CARMA Extension.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
* Progress here
</div>
</div>

2013 Project Week:CARMA LA Seg Gopal

2012-12-11T23:00:26Z

Cates: /* Key Investigators */

2013 Project Week:CARMA PV Antrum Cut

2012-12-11T16:38:01Z

Cates: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Salma Bengali, Alan Morris, Greg Gardner, Josh Cates

[[File:CARMA_PV_AntrumCut.png|thumb|center|Project Goal: A Slicer Module to compute the endocardial surface minus pulmonary veins (the light blue region). Requires an input endocardial surface (orange) and wall segmentation (green).]]

The standard CARMA clinical MRI processing workflow involves several segmentation steps, and we seek to implement our entire workflow in Slicer. The goal of this project is to fill one of the current gaps in the processing pipeline, which is to produce an LA endocardial surface segmentation that includes only the antrum regions of the pulmonary veins. There are no image features that define this boundary, but we have developed some heuristic criteria. Given a completed LA wall segmentation and a completed endocardial segmentation (blood pool), we have developed a simple algorithm to automatically compute the endocardium with PV antrum regions. The goal of this project is to implement this algorithm in Slicer.

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* Objective 1
* Objective 2
* etc.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
PLAN HERE
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
* Progress here
</div>
</div>

File:CARMA PV AntrumCut.png

2012-12-11T16:23:07Z

Cates:

2013 Project Week:CARMA RT MRI

2012-12-11T16:16:20Z

Cates:

__NOTOC__
<gallery>
Image:PW-SLC2013.png|[[2012_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
Alan Morris, Ashvin George, Josh Cates, Rob MacLeod

[[File:file_here.png|thumb|center|Image Here]]

* SUMMARY HERE

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Objective</h3>
* Objective 1
* Objective 2
* etc.
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Approach, Plan</h3>
PLAN HERE
</div>
<div style="width: 27%; float: left; padding-right: 3%;">
<h3>Progress</h3>
* Progress here
</div>
</div>