Difference between revisions of "DBP:Harvard:Software:Minutes:4"

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== DTI Meeting Minutes | April 26, 2006 ==
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== DTI Meeting Minutes - 4/12/06 ==
  
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<br /> Present: Doug, Marc, Katharina, Sylvain, Kang Uk, Gordon, CF, Marek, Gudrun
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Present: Doug, Gudrun, Marc, Mark, KangUk, Sylvain, Marek, CF, Gordon, Katharina, Jenny
  
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<br />
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<br />'''Tensor Registration'''
  
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* Slicer
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* Slicer-nightly gives wrong results in tensor registration module; Kang Uk will talk to Matthan about correcting this
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** Slicer26 should be able to read NRRD DWIs now
 
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** doDTI gives you mean FA, would be nice to display this in Slicer somewhere
 
  
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<br />'''DTI data converted to NRRD'''
  
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* New protocol: scanning today?
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* Mark is working on converting all of our diffusion data to NRRD format. So far coronal data has been converted, and is now stored in /caseDXX/coronal_nhdr/ . The volumes stored are DWI, T2W, and FIL, and all need to be read using slicer2-nightly.
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** required that a licensed MD approve every scan
 
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** sequence will be DICOM files, probably same format as before, same procedure for downloading
 
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** Marek meeting with Nan-Quei at 1:30 today at the SPL to talk about the protocol
 
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** Will try multiple scans varying b-value and number of directions
 
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*** Will try 750 and 1000 with minimum of 32 directions; also try 50 directions
 
  
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<br />'''Scalar Measures/Negative Eigenvalues'''
  
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* Anterior Commissure
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* After data is converted to NRRD, we will test cases again to see if scalar measures are consistent.
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** would be nice to have an extra scalar map with orientation overlayed with the output of this method
 
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** Gordon will finish creating these maps and send to Sylvain
 
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<br />
 
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* Cingulum Bundle histograms of FA/Mode
 
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** note that people tend to overestimate how linear the ROI will be.. mostly orthotropic
 
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** now that we know that anisotropy is a bi-variate quantity, still need to answer the question about how to do statistics on this; non-parametric tests?
 
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** would be helpful to have comparison of different white matter ROIs, plotted in this space
 
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*** Corpus callosum, cingulum bundle, STG white matter, STG gray matter, CSF; these ROIs will be sent to Gordon
 
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* Kang Uk - problem with tensor coregistration?
 
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** script was updated by Mattan in slicer-nightly, but still doesn't seem to be working
 
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** will try a basic co-registration of two tensor sets in the same direction
 

Revision as of 13:55, 18 December 2006

Home < DBP:Harvard:Software:Minutes:4

DTI Meeting Minutes - 4/12/06

Present: Doug, Gudrun, Marc, Mark, KangUk, Sylvain, Marek, CF, Gordon, Katharina, Jenny


Tensor Registration

  • Slicer-nightly gives wrong results in tensor registration module; Kang Uk will talk to Matthan about correcting this


DTI data converted to NRRD

  • Mark is working on converting all of our diffusion data to NRRD format. So far coronal data has been converted, and is now stored in /caseDXX/coronal_nhdr/ . The volumes stored are DWI, T2W, and FIL, and all need to be read using slicer2-nightly.


Scalar Measures/Negative Eigenvalues

  • After data is converted to NRRD, we will test cases again to see if scalar measures are consistent.
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