Hi Paul, I did the following steps
1. Save the file into $FREESURFER/bin (you might need to modify permissions) 2. Create a list of GTM directories from the subjects for i in `cat list_of_subjects`; do echo $i/gtmpvc.output >> gtmdirlist 3. Run gtmstats2table with gtmdirlist as the input gtmstats2table --f gtmdirlist --o data/gtmstats.csv Hope that helps. Best Wishes, Elijah Elijah Mak, Research Associate Department of Psychiatry, Old Age Psychiatry Group University of Cambridge Trinity College, CB21TQ, UK http://www.neuroscience.cam.ac.uk/directory/profile.php?fkm24 On 29 June 2017 at 18:27:13, miracle ozzoude (miracoo...@gmail.com) wrote: Hello Elijah, I want to extract this values like you did. How do I use the script doug recommended? Thanks Paul On Wed, Jun 21, 2017 at 11:47 AM, Elijah Mak <fk...@medschl.cam.ac.uk> wrote: Thanks Doug! It works! Best Wishes, Elijah On 21 June 2017 at 16:09:29, Douglas N Greve (gr...@nmr.mgh.harvard.edu) wrote: use this script https://gate.nmr.mgh.harvard.edu/safelinks/greve/gtmstats2table On 06/21/2017 10:53 AM, Elijah Mak wrote: > Hi Freesurfer Team > > Apologies for bumping this thread up again. I am wondering if is there > is a way to extract the ROI stats in gtm.stats.dat after mri_gtmpvc > (using a similar approach such as asegstats2table)? > > Thanks for your help! > > Best Wishes, > Elijah > > > > On 16 June 2017 at 16:53:33, Elijah Mak (fk...@medschl.cam.ac.uk > <mailto:fk...@medschl.cam.ac.uk>) wrote: > >> Hi Unix experts, >> >> I am trying to extract the PVC-ed values from gtm.stats.dat for every >> subject. Is there a fast way to do this using a similar workflow with >> asegstats2table? Thanks. >> >> Best Wishes, >> Elijah > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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. _______________________________________________ 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. _______________________________________________ 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.
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