Collaboration/MCIC/DTI:mgh60direction - Revision history

Hjbockholt: /* References */

2007-06-29T13:26:03Z

References

Hjbockholt at 13:23, 29 June 2007

2007-06-29T13:23:28Z

Hjbockholt: /* References */

2007-06-29T12:51:14Z

References

Hjbockholt: /* References */

2007-06-27T19:58:36Z

References

Hjbockholt at 15:53, 27 June 2007

2007-06-27T15:53:53Z

Hjbockholt at 15:53, 27 June 2007

2007-06-27T15:53:07Z

Hjbockholt at 15:51, 27 June 2007

2007-06-27T15:51:26Z

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__NOTOC__
===Key Investigators===
* MIND: Jeremy Bockholt, Sumner Williams
* MGH: Bruce Fischl
* Utah: Tom Fletcher
* Iowa: Vincent Magnotta

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<h1>Objective</h1>
We are developing interested for further methods for analyzing diffusion tensor data. We currently use V. Magnotta GTRACT tools, but wish to read

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

<h1>Approach, Plan</h1>

Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below. The main challenge to this approach is <foo>.

Our plan for the project week is to first try out <bar>,...
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<h1>Progress</h1>

*We have an anonymized dicom mosaic format MGH 60 direction test data set with us.
*Sumner is struggling to convert the mosaic format into NRRD (the mosaic format does not appear to be compatible with unu?)
*We have asked Raul to assist us with reading this data-set into NRRD

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===References===

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 *We worked with Vince Magnotta on further integration efforts between GTRACT and Freesurfer efforts which will provide a tool for regional summary of DTI scalars based on a talairach parcellation of white matter using Freesurfer segmentation.
 *'''Future Work'''
-** Sumner will continue to work through the Slicer2.7 DTI tutorial on the NRRD version of the MGH 60 direction format
+** Sumner will continue to work through the Slicer2.7 DTI tutorial on the NRRD version of the MGH 60 direction format, our intention is to apply the tools to a sample of 300 schizophrenic subjects in the MCIC project
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 *We have an anonymized dicom mosaic format MGH 60 direction test data set with us.
-*Sumner is struggling to convert the mosaic format into NRRD (the mosaic format does not appear to be compatible with unu?)
+*Sumner worked on the Slicer2.7 DTI NRRD to DICOM and DTI processing tutorials.
-*We have asked Raul to assist us with reading this data-set into NRRD.  He suggested running a demosaic script and then a standard unu script to read this type of data in.
+*Sumner worked with Raul to convert the MGH 60 direction mosaic format into NRRD format
+**The mosaic format is somewhat difficult to convert into NRRD format
+*Sumner modified an example demosaic script provided by Raul and wrote a perl script to automate this conversion.
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@@ Line 27: / Line 27: @@
 <h1>Approach, Plan</h1>
-Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below.  The main challenge to this approach is <foo>.
+Our approach for analyzing diffusion tensors is use documentation on existing tools once our data is converted to NRRD format.
 Our plan for the project week is to first try out <bar>,...

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 <h1>Objective</h1>
-We are developing interested for further methods for analyzing diffusion tensor data.  We currently use V. Magnotta GTRACT tools, but wish to read
+We are interested for further methods for analyzing diffusion tensor data.  We currently use V. Magnotta GTRACT tools, but wish to come up to speed on additional methods and tools in the NA-MIC kit.  The MCIC project has approximately 300 schizophrenic patients and matched healthy volunteers collected at 4 sites for which we can potentially apply NA-MIC kit tools.
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