Sorry, I thought my original post would be somehow linked to the second one. Here it is:
Dear Freesurfer experts,

I would like to segment a WM skeleton I derived using FSL's TBSS into ROIs
based on white matter regions as derived in the wmparc.mgz file. I thought of
using the "fsaverage" subject, but it does not have the
wmparc.mgz file; thus I plan to use the CVS atlas (cvs_avg35_inMNI152). My plan
is to extract each relevant ROI from wmparc.mgz, transform it into a binary
file in MNI space, then use it to mask my WM skeleton
using fslstats. I used this example command to extract the left WM postcentral
ROI:
> mri_extract_label
> /Applications/freesurfer/subjects/cvs_avg35_inMNI152/mri/wmparc.mgz 3022
> wm-lh-postcentral.mgz
Now I need to transform the resulting file into a binary file with the same
orientation and space as the MNI152_1mm standard brain
($FSLDIR/data/standard/MNI152_T1_1mm_brain.nii.gz) before using it with
fslstats. Could you please point to me the commands in order to achieve this?

Thank you.

Estephan J. Moana-Filho, DDS, MS, PhD
Clinical Assistant Professor
TMD and Orofacial Pain Division
U of MN School of Dentistry

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Reply via email to