DBP3:Iowa - Revision history

Dmwelch: /* DTI Processing */

2013-03-19T15:02:20Z

DTI Processing

Dmwelch: /* Morphometric Processing */

2013-03-19T15:00:40Z

Morphometric Processing

Dmwelch: /* DTI Processing */

2013-03-19T15:00:21Z

DTI Processing

Dmwelch: /* In Progress / Completed (Reverse Chronological) */

2013-03-19T14:59:21Z

In Progress / Completed (Reverse Chronological)

Dmwelch: /* DTI Processing */

2013-03-19T14:55:15Z

DTI Processing

Dmwelch: /* DTI Processing */

2013-03-19T14:50:55Z

DTI Processing

Dmwelch: /* In Progress / Completed (Reverse Chronological) */

2013-03-19T14:49:23Z

In Progress / Completed (Reverse Chronological)

Dmwelch: /* Shape Analysis */

2013-03-19T14:48:52Z

Shape Analysis

Dmwelch: /* Morphometric Processing */

2013-03-19T14:47:49Z

Morphometric Processing

Dmwelch: /* In Progress / Completed (Reverse Chronological) */

2013-03-19T14:45:49Z

In Progress / Completed (Reverse Chronological)

@@ Line 48: / Line 48: @@
 ** Create PPT presentation for DTIPrep.
 * (Complete: 2013-02-08) Process data from raw DICOM data (enhanced DicomToNRRDConverter)
-** (Complete: 2012-12-30) Add testing data suite to DicomToNRRDConverter
+** (Complete: 2011-01-30) Add testing data suite to DicomToNRRDConverter
 ** (Complete: 2010-12-31) CMake URL data download mechanisms (Look at Titan CMake has examples of this).
 ** 2010-12-31 (Clement)  DicomToNRRDConverter use of B-Matrix for vb13 data DTI_THP Iowa data.

@@ Line 31: / Line 31: @@
 === Morphometric Processing ===
 Goals: Have all the documentation and code in place for BRAINSTools to easily be used by the community.
-* 2011-02-15 (<s>Mark Scully</s> Dave Welch):  Prepare the BRAINSTools Toolkit for public use
+* 2011-02-15 (Mark, Dave):  Prepare the BRAINSTools Toolkit for public use
 ** Improve the consistency of the command line argument processing
 *** Create an XML formal Schema from the SEM model examples

@@ Line 43: / Line 43: @@
 === DTI Processing ===
 Goals: Tools for a longitudinal analysis pipeline of changes measured by fiber tractography to identify white matter tracts that have strong co-morbid degenerative timelines compared to subcortical degeneration over time. Enable the use of the advanced DTI processing in NA-MIC within PREDICT HD. Specifically, adapt all NA-MIC tools to work as individual external Slicer modules (in part they already exist, but need further work), as well as combine them into a single Slicer DTI processing wizard.
-* 2010-12-15 (<s>Mark</s>, Joy, UNC Team):
+* 2010-12-15 (Mark, Joy, UNC Team):
 ** Word doc Tutorial updated with visual inspection info
 ** Create Media Wiki version of documentation

@@ Line 12: / Line 12: @@
 <b><em>Cross-sectional shape analysis will be performed via an ancillary grant in cooperation with Guido Gerig at Utah</em></b>
 * (In Progress: Winter 2012) SPHARM-PDM Slicer3 integration/dissemination
 * <s>(In Progress: Winter 2012) Analyze 225 subjects with between 3-6 longitudinally collected scans including Caudate/Putamen/Thalamus using cross sectional tools.</s>

@@ Line 42: / Line 42: @@
 === DTI Processing ===
 Goals: Tools for a longitudinal analysis pipeline of changes measured by fiber tractography to identify white matter tracts that have strong co-morbid degenerative timelines compared to subcortical degeneration over time. Enable the use of the advanced DTI processing in NA-MIC within PREDICT HD. Specifically, adapt all NA-MIC tools to work as individual external Slicer modules (in part they already exist, but need further work), as well as combine them into a single Slicer DTI processing wizard.
-* 2010-12-15 (Mark, Joy, UNC Team):
+* 2010-12-15 (<s>Mark</s>, Joy, UNC Team):
 ** Word doc Tutorial updated with visual inspection info
 ** Create Media Wiki version of documentation
 ** Create PPT presentation for DTIPrep.
-* Process data from raw DICOM data (enhanced DicomToNRRDConverter)
+* (Complete: 2013-02-08) Process data from raw DICOM data (enhanced DicomToNRRDConverter)
-** 2010-11-30 (Kent, Joy): Add testing data suite to DicomToNRRDConverter  (Joy to identify, Kent to implement)
+** (Complete: 2012-12-30) Add testing data suite to DicomToNRRDConverter
-** (Complete 2010-12-31(Mark)): CMake URL data download mechanisms (Look at Titan CMake has examples of this).
+** (Complete: 2010-12-31) CMake URL data download mechanisms (Look at Titan CMake has examples of this).
 ** 2010-12-31 (Clement)  DicomToNRRDConverter use of B-Matrix for vb13 data DTI_THP Iowa data.
 * Target 2011-05-01 (Revised: 2011-10-01) (Clement/Mahshid): DTI noise estimation, Rician noise filtering
@@ Line 79: / Line 79: @@
 ** Reporting of tool status. Track the OpenProvenance project.
 ** Use XML so that we can convert of OpenProvenance latter if desired.
-* 2013-08-30 (Mark): DTI processing wizard in Slicer
+* 2014-08-30 (Dave, Jessica): DTI processing wizard in Slicer
 * 2013-08-30 (Clement): Longitudinal DTI analysis module
 ** Create processing pipeline for batch processing a large number of data sets

← Older revision		Revision as of 14:49, 19 March 2013
Line 10:		Line 10:

	=== In Progress / Completed (Reverse Chronological) ===		=== In Progress / Completed (Reverse Chronological) ===
		+	<b><em>Cross-sectional shape analysis will be performed via an ancillary grant in cooperation with Guido Gerig at Utah</em></b>

	* (In Progress: Winter 2012) SPHARM-PDM Slicer3 integration/dissemination		* (In Progress: Winter 2012) SPHARM-PDM Slicer3 integration/dissemination

@@ Line 91: / Line 91: @@
 ** Statistical Shape Analysis Tools
 *** CSV files as part of Slicer standards (Paths, variables, group associations, etc)
 * <s>2012-01-01 (Mark):  Analyze 225 subjects with Cross sectional tools</s>
 ** <s>With between 3-6 longitudinally collected scans.</s>

@@ Line 28: / Line 28: @@
 === Morphometric Processing ===
-Goals: Have all the documentation and code in place for BRAINS3 to easily be used by the community.
+Goals: Have all the documentation and code in place for BRAINSTools to easily be used by the community.
-* 2011-02-15 (Mark Scully):  Prepare the BRAINS3 Toolkit for public use
+* 2011-02-15 (<s>Mark Scully</s> Dave Welch):  Prepare the BRAINSTools Toolkit for public use
 ** Improve the consistency of the command line argument processing
 *** Create an XML formal Schema from the SEM model examples
@@ Line 35: / Line 35: @@
 *** Make SEM into it's own External_Add project to ease use by other packages
 *** Move internal documentation from https://www.icts.uiowa.edu/confluence/display/BRAINS/Command+line+argument+rules, to the SEM pages section
-** (Hans Johnson) Improve merging strategies between BRAINS3Tools that are part of BRAINS3 and BRAINS3Tools that are part of Slicer3.  A combination of git svn should ease the integration of these two platforms.  -- This is not as easy as expected, and it is probably not a good use of our time to make this more automated.  It will continue to be done manually.
+** (Hans Johnson) Improve merging strategies between BRAINSTools that are part of BRAINS3 and BRAINSTools that are part of Slicer3.  A combination of git svn should ease the integration of these two platforms.  -- This is not as easy as expected, and it is probably not a good use of our time to make this more automated.  It will continue to be done manually.
-* 2012-01-15 (Mark Scully): Create documentation for a standard morphometric analysis
+* <s>2012-01-15 (Mark Scully): Create documentation for a standard morphometric analysis</s>
-* 2013-01-08 (Mark Scully): Create tutorial for full morphometric analysis suitable for basing a DWI based analysis on.
+* <s>2013-01-08 (Mark Scully): Create tutorial for full morphometric analysis suitable for basing a DWI based analysis on.</s>
 === DTI Processing ===