External Email - Use Caution
Thank you Doug!
*Daniel Callow*
*PhD Student, Neuroscience and Cognitive Science*
Exercise for Brain Health Lab
University of Maryland, College Park
*ddcc2...@gmail.com <ddcc2...@gmail.com>*
443-254-6298
On Tue, Apr 9, 2019 at 11:03 AM Greve, Douglas N.,Ph.D. <
dgr...@mgh.harvard.edu> wrote:
> Try using mri_binarize with the hipsubfields as input and using --match
> 231 232
> This will create a mask of all voxels that match the numbers
>
> On 4/8/2019 8:49 PM, Daniel Callow wrote:
>
> External Email - Use Caution
> Hello,
>
> I am trying to create ROI volumes from the hippocampal subfields I get from
>
> mri_vol2vol --mov
> /Volumes/DANIEL/dti_freesurf/dtrecon/${cond}.${subj}/lowb.nii.gz --targ
> /Volumes/DANIEL/dti_freesurf/diffusion_recons/${subj}.${cond}/mri/lh.hippoAmygLabels-T1.long.v21.HBT.FSvoxelSpace.mgz
> --inv --interp nearest --o
> /Volumes/DANIEL/dti_freesurf/dtrecon/${cond}.${subj}/lhipp2diff.nii.gz
> --reg /Volumes/DANIEL/dti_freesurf/dtrecon/${cond}.${subj}/register.dat
> --no-save-reg
>
> so that I can merge specific hippocampal subfields I want together into a
> single ROI (like --id 231 and --id 232). However, when looking through the
> freesurfer options like mri_vol2vol there isn't an option to index to
> specific segments of the lh.hippoAmygLabels-T1.long.v21.HBT.FSvoxelSpace.mgz
> volume
> I have converted into dti space.
>
> My plan is to combine the head and body segments and extract average
> diffusion information from the combined mask.
>
> Anything that can help get me in the right direction would be greatly
> appreciated!
>
> *Daniel Callow*
> *PhD Student, Neuroscience and Cognitive Science*
> Exercise for Brain Health Lab
> University of Maryland, College Park
> *ddcc2...@gmail.com <ddcc2...@gmail.com>*
> 443-254-6298
>
>
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