Difference between revisions of "2013 Project Week:WebbasedAnatomicalTeachingFramework"

From NAMIC Wiki
Jump to: navigation, search
m (Text replacement - "http://www.slicer.org/slicerWiki/index.php/" to "https://www.slicer.org/wiki/")
 
(15 intermediate revisions by 2 users not shown)
Line 2: Line 2:
 
<gallery>
 
<gallery>
 
Image:PW-SLC2013.png|[[2013_Winter_Project_Week#Projects|Projects List]]
 
Image:PW-SLC2013.png|[[2013_Winter_Project_Week#Projects|Projects List]]
 +
Image:Mi2b2_1.png|Screenshot of the prototype
 +
Image:Mi2b2_2.png|Screenshot of the prototype
 
</gallery>
 
</gallery>
  
Line 16: Line 18:
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<h3>Objective</h3>
 
<h3>Objective</h3>
* One goal of the mi2b2 collaborative effort is to create a web-based teaching tool for fetal and neonatal anatomy as well as a browser for quantified information. The goal of this project is to create a prototype application for this purpose which can be easily extended to other testing scenarios.
+
* Over the last several years, an [[CTSC:ARRA_supplement | infrastructure has been developed to integrate health records and PACS image archives]] to support research on large collections of data collected during delivery of healthcare (as contrasted with data collected as part of clinical trials). This resulted in the availability of [http://www.mi2b2.org the mi2b2 system].  An application enabled by this technology is supported by an [http://projectreporter.nih.gov/project_info_description.cfm?aid=8272742&icde=13552329&ddparam=&ddvalue=&ddsub=&cr=1&csb=default&cs=ASC R01 to use clinical scans of children aged zero to six years old to build a teaching atlas].
 +
* One goal of the [http://www.mi2b2.org mi2b2] collaborative effort is to create a web-based teaching tool for fetal and neonatal anatomy as well as a browser for quantified information. The goal of this project is to create a prototype application for this purpose which can be easily extended to other testing scenarios.
 
</div>
 
</div>
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<div style="width: 27%; float: left; padding-right: 3%;">
Line 22: Line 25:
 
We propose the following steps to create a high-level didactic content creation tool.
 
We propose the following steps to create a high-level didactic content creation tool.
 
* Enable switching between different testing scenarios (fetal brains, liver etc.)
 
* Enable switching between different testing scenarios (fetal brains, liver etc.)
* Start with the existing Liver tutorial dataset from the NA-MIC training core which includes a limited number of Q&A
+
* Start with the existing [https://www.slicer.org/wiki/Documentation/4.2/Training#Slicer4_3D_Visualization_of_DICOM_images_for_Radiology_Applications Liver tutorial dataset and slides] from the NA-MIC training core which includes a limited number of questions and answers
 
* Load a visual scene linked to a question catalog from a defined file format (XML?)
 
* Load a visual scene linked to a question catalog from a defined file format (XML?)
 
* The visualization and the questions are linked so answers can be provided in a fully interactive fashion (picking of a 3D mesh.. etc.)
 
* The visualization and the questions are linked so answers can be provided in a fully interactive fashion (picking of a 3D mesh.. etc.)
Line 28: Line 31:
 
* Use 3D Slicer to generate content for training and testing
 
* Use 3D Slicer to generate content for training and testing
 
* Prototype will be built on top of existing visualization infrastructure ([http://goXTK.com XTK] and [http://fetalmri.org web-based fetal atlas tool])
 
* Prototype will be built on top of existing visualization infrastructure ([http://goXTK.com XTK] and [http://fetalmri.org web-based fetal atlas tool])
 +
* We envision a system somewhat like existing online quiz systems ([http://www.surveymonkey.com], [http://www.classmarker.com/], [http://dontshake.org/lms/lms_information/lms_quiz.php], [http://www.proprofs.com/quiz-school/]) but with interactive 3D content drawn from the clinical use cases.
 +
* May use a helper library like [https://github.com/jewlofthelotus/SlickQuiz SlickQuiz] [http://www.jewlofthelotus.com/2011/12/23/slickquiz-jquery-plugin-now-on-github/comment-page-1/]
 
</div>
 
</div>
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<h3>Progress</h3>
 
<h3>Progress</h3>
 
* User interface mockups are being prepared
 
* User interface mockups are being prepared
 +
* Development repository: https://github.com/FNNDSC/mi2b2_aim3
 +
* Problems/ToDo:
 +
** <strike>Update WebGLExport module to new XTK version</strike>
 +
** <strike>Fix XTK with Liver CT volume (right now scalar range messes things up) or convert (normalize) the volume</strike>
 +
* First working prototype is online!
 +
** http://fnndsc.github.com/mi2b2_aim3/
 +
 
</div>
 
</div>
 
</div>
 
</div>
 +
 +
== Draft Development Plans ==
 +
 +
=== Phase I: Developer Mockups ===
 +
During the first half of 2013:
 +
* Hand-coded (html, javascript) mockups using to create content from existing content
 +
** Liver tutorial from Sonia
 +
** Fetal brain atlas
 +
* Identify best practices and experiment with different Question and Answer modes
 +
* Identify best practices and experiment with user interaction
 +
* Getting feedback on mi2b2 team and refining the mockups
 +
 +
=== Phase II: Limited Beta ===
 +
During second half of 2013:
 +
* Identify first set of training content suitable for wider trial
 +
* Set up a site to host training materials
 +
** Set up back end system to record test results?
 +
** Review [http://en.wikipedia.org/wiki/Redcap_(Research_Electronic_Data_Capture) RedCap] as a back end ([http://www.project-redcap.org/ home page], [https://redcap.vanderbilt.edu/surveys/index.php?hash=40008b9a5380fcacce3976bf7c08af5b example survey)]
 +
** Consider tie-in to RSNA Audience Response Tool
 +
* Open site to radiology trainees and gather feedback
 +
* Integrate infant brain atlas data as it becomes available
 +
 +
=== Phase III: Authoring Tools ===
 +
During 2014:
 +
* Develop system for clinician-educators to easily create content
 +
** Define images, models, annotations, atlases to display
 +
** Define didactic material
 +
** Export content to hosting site
 +
* Leverage tools like Scene Views and WebGL Export from Slicer

Latest revision as of 18:01, 10 July 2017

Home < 2013 Project Week:WebbasedAnatomicalTeachingFramework

Key Investigators

  • Daniel Haehn, Rudolph Pienaar, Ellen Grant (Boston Children's Hospital)
  • Steve Pieper (Isomics Inc.)
  • Sonia Pujol (BWH)
  • Randy Gollub (MGH)

Project Description

Objective

Approach, Plan

We propose the following steps to create a high-level didactic content creation tool.

  • Enable switching between different testing scenarios (fetal brains, liver etc.)
  • Start with the existing Liver tutorial dataset and slides from the NA-MIC training core which includes a limited number of questions and answers
  • Load a visual scene linked to a question catalog from a defined file format (XML?)
  • The visualization and the questions are linked so answers can be provided in a fully interactive fashion (picking of a 3D mesh.. etc.)
  • Track user-specified answers and provide statistics after testing mode
  • Use 3D Slicer to generate content for training and testing
  • Prototype will be built on top of existing visualization infrastructure (XTK and web-based fetal atlas tool)
  • We envision a system somewhat like existing online quiz systems ([1], [2], [3], [4]) but with interactive 3D content drawn from the clinical use cases.
  • May use a helper library like SlickQuiz [5]

Progress

Draft Development Plans

Phase I: Developer Mockups

During the first half of 2013:

  • Hand-coded (html, javascript) mockups using to create content from existing content
    • Liver tutorial from Sonia
    • Fetal brain atlas
  • Identify best practices and experiment with different Question and Answer modes
  • Identify best practices and experiment with user interaction
  • Getting feedback on mi2b2 team and refining the mockups

Phase II: Limited Beta

During second half of 2013:

  • Identify first set of training content suitable for wider trial
  • Set up a site to host training materials
  • Open site to radiology trainees and gather feedback
  • Integrate infant brain atlas data as it becomes available

Phase III: Authoring Tools

During 2014:

  • Develop system for clinician-educators to easily create content
    • Define images, models, annotations, atlases to display
    • Define didactic material
    • Export content to hosting site
  • Leverage tools like Scene Views and WebGL Export from Slicer