Got it : aseg2feat --feat featdir --seg aparc+aseg
On 06/22/11, "Sudhin A. Shah" <sut2...@med.cornell.edu> wrote: > > > Hi, > > So I think I found the solution - > (http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/RegisterFeatOntoAnatomical) > > reg-feat2anat > aseg2feat or aparc2feat > > New question: > Is there anyway to combine aseg2feat and aparc2feat? i.e. get all subcortical > and cortical segmentations registered to functional space? > > Thanks, > S > > On 06/21/11, Douglas N Greve <gr...@nmr.mgh.harvard.edu> wrote: > > > > Hi Sudhin, this looks like an AFNI question. Have you tried posting to > > the AFNI list? > > doug > > > > Sudhin A. Shah wrote: > > > > > > > > > > > > > > > On Jun 17, 2011, at 6:25 PM, "Sudhin A. Shah" <sut2...@med.cornell.edu > > > <mailto:sut2...@med.cornell.edu <sut2...@med.cornell.edu>>> wrote: > > > > > >> Hi, > > >> > > >> Can somebody please help me figure out how to correct this issue? > > >> > > >> 1 subject - 2 functional scans > > >> > > >> 1) run recon-all on subject anatomical. > > >> > > >> 2) process functional series (using AFNI/FSL) - each individually. > > >> > > >> 3) use > > >> (http://afni.nimh.nih.gov/pub/dist/doc/program_help/@ROI_Corr_Mat.html) > > >> (http://afni.nimh.nih.gov/pub/dist/doc/program_help/@ROI_Corr_Mat.html%29) > > >> @ROI_Corr_Mat -ts proc_func1 -roi aparc+aseg -prefix all (each > > >> individually) > > >> > > >> This works (I don't know why since I am not doing anything to > > >> register them to a common space). > > >> > > >> 4) I get a square matrix of 109 (n x n correlation matrix) in 1 > > >> timepoint and 112 in 2nd timepoint. > > >> > > >> I would like to get the /exact same number /so I can compare them! Of > > >> course I can manually adjust the rows/columns later, but I am not > > >> sure this is the smartest way to do this. > > >> > > >> Can I do all the steps in Freesurfer? > > >> > > >> Thank you, > > >> S > > >> _______________________________________________ > > >> Freesurfer mailing list > > >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu > > >> <Freesurfer@nmr.mgh.harvard.edu>> > > >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > >> (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 > > >> (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 > > > (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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > (https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer) > > > > -- > Sudhin A. Shah > Postdoctoral Fellow > Laboratory of Cognitive Neuromodulation > Weill Cornell Medical College, NY,NY > (212) 746-4514 > -- Sudhin A. Shah Postdoctoral Fellow Laboratory of Cognitive Neuromodulation Weill Cornell Medical College, NY,NY (212) 746-4514
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