Hi Catalina, It's been a while since I've used PALM on CIFTI data, so the support may have evolved since then, but last summer I was using wb_command's cifti-separate feature to export cortical left and right GIFTI and subcortical NIFTI for input into PALM. I used scripts like these, which might not be perfect, and probably won't be suitable for your exact circumstances:
http://brainmap.wustl.edu/pub/donna/WUSTL/HCP/TFCE/PALM/palm_stuff.zip login pub password download PALM's surface-based TFCE takes a mean midthickness surface and associated mean vertex areas to compute the surface area used in the algorithm. Those can be your study-specific ones or HCP averages, which is what these scripts use. PALM's learning curve is non-trivial, but it handles family structure, so it's worth the effort. Anderson Winkler supports PALM on the FSL list, but the wiki link Matt provided below answers many questions. Cheers, Donna On Mar 3, 2016, at 8:29 PM, "Glasser, Matthew" <[email protected]> wrote: > I would recommend using these files: > > ${StudyFolder}/${Subject}/MNINonLinear/fsaverage_LR32k/${Subject}.MyelinMap.32k_fs_LR.dscalar.nii > > And FSL’s PALM tool for the stats: > > http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/PALM > > Perhaps others on the list can give some more assistance from here. > > Peace, > > Matt. > > From: <[email protected]> on behalf of Catalina > Bustamante <[email protected]> > Date: Thursday, March 3, 2016 at 11:50 AM > To: "[email protected]" <[email protected]> > Subject: [HCP-Users] Group analysis for Myelin Maps > > Hi, > > I would like to make group analysis and comparison between groups for myelin > maps created with the HCP Pipelines. I haven´t found an script or > documentation of the right way to do it; could you help me finding the way to > do it? > > Thanks a million! > > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you are > not the intended recipient, be advised that any unauthorized use, disclosure, > copying or the taking of any action in reliance on the contents of this > information is strictly prohibited. If you have received this email in error, > please immediately notify the sender via telephone or return mail. > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
