Hi Sophie, you can run the following command: cd $SUBJECTS_DIR/yoursubject mris_apply_reg --src xhemi/surf/lh.thickness --streg xhemi/surf/lh.fsaverage_sym.sphere.reg surf/lh.fsaverage_sym.sphere.reg --tval surf/lh.rh.thickness.mgh
lh.rh.thickness.mgh will now have the rh thicknesses on the rh surface mris_apply_reg is only available in 5.2. If you don't have 5.2, I can get you a version of this program if you tell me your OS. Also note that you need to go through the xhemi-reg procedure first. doug On 03/18/2013 10:40 AM, Sophie Maingault wrote: > Yes if it is possible I would like to know how to do it ? > > Thanks ! > > Sophie > > -----Message d'origine----- > De : Douglas N Greve [mailto:gr...@nmr.mgh.harvard.edu] > Envoyé : lundi 18 mars 2013 14:39 > À : Sophie Maingault; Freesurfer@nmr.mgh.harvard.edu > Objet : Re: [Freesurfer] Asymmetries of cortical thickness > > It is possible, it is just not a good idea because if you map rh to lh > and then compare to lh, the rh will have been interpolated to get it > into the lh. Even if there are no differences between the two, you will > see differences because of the interpolation. Mapping both to > fsaverage_sym means that both will be interpolated. If this > interpolation does not bother you, then I can show you how to get it > from rh to lh. > doug > > > > > On 03/18/2013 09:24 AM, Sophie Maingault wrote: >> So i didn't understand what you mean by "just specify one subject when > your >> mris_preproc" ? Because, in fact I don't want to use the registration on >> fsaverage_sym. I would like just to create a file lh.thickness less >> rh.thickness vertex per vertex, maybe it is not possible ? >> >> -----Message d'origine----- >> De : Douglas N Greve [mailto:gr...@nmr.mgh.harvard.edu] >> Envoyé : lundi 18 mars 2013 14:15 >> À : Sophie Maingault; Freesurfer@nmr.mgh.harvard.edu >> Objet : Re: [Freesurfer] Asymmetries of cortical thickness >> >> No, it is not, the target needs to be fsaverage_sym >> doug >> >> >> On 03/18/2013 09:13 AM, Sophie Maingault wrote: >>> So I do : mris_preproc --target fsaverage --xhemi --hemi lh --paired-diff >>> --meas thickness --out lh.lh-rh.thickness.sm00.mgh --s t0001 --s t0003 > --s >>> t0009 --s t0027 --s t0031 --s t0033 --s t0126 --s t0148 --s t0171 --s >> t0174 >>> --s t0199 --s t0203 --s t0212 --s t0215 --s t0242 --s t0245 --s t0253 --s >>> t0254 --s t0256 --s t0268 >>> >>> You think it's ok ? >>> >>> Sophie >>> >>> -----Message d'origine----- >>> De : freesurfer-boun...@nmr.mgh.harvard.edu >>> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] De la part de Douglas N >>> Greve >>> Envoyé : lundi 18 mars 2013 13:49 >>> À : freesurfer@nmr.mgh.harvard.edu >>> Objet : Re: [Freesurfer] Asymmetries of cortical thickness >>> >>> you will have to use the same stream, just specify one subject when your >>> mris_preproc >>> doug >>> >>> >>> On 03/18/2013 08:06 AM, Sophie Maingault wrote: >>>> Hello, >>>> >>>> Iobtained a map of cortical thickness asymmetries after the >>>> registration on the symmetric atlas. But I would to obtain the same >>>> map with raw data I mean just by subtract lh.thickness and >>>> rh.thickness. How can I modify the part #Create a stack of subjects in >>>> wiki page ? I have to register to fsaverage (and not fsaverage_sym) >>>> and then do the same thing ? >>>> >>>> Thanks you for your help. >>>> >>>> Sophie >>>> >>>> >>>> >>>> _______________________________________________ >>>> 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: 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.
