[Freesurfer] what's the parc_dir flag in mri_ca_train

Dear Freesurfer Experts I'm trying to train the program to recognize subcorticle structures of Vervet monkeys using command mri_ca_train. I've manually made a bunch of labels, and as I use the mri_ca_train, it stopped for no reason. On the wiki page : http://surfer.nmr.mgh.harvard.edu/fswiki/

Re: [Freesurfer] what's the parc_dir flag in mri_ca_train

parc_dir is the name of the manual segmentation volume for each subject (it's old terminology) On Fri, 22 May 2009 xfore...@ucla.edu wrote: Dear Freesurfer Experts I'm trying to train the program to recognize subcorticle structures of Vervet monkeys using command mri_ca_train. I've manua

[Freesurfer] longitudinal processing stream

Hi freesurfer team, I noticed in the new version release notes that the longitudinal stream is still a work in progress. Any idea of what the time-frame is for this fix? Also, I was wondering if there is a way after longitudinal processing to look at change maps in tkmedit or tksurfer (e.g.

Re: [Freesurfer] what's the parc_dir flag in mri_ca_train

Andy, The script 'rebuild_gca_atlas.csh' included in the bin dir shows how a subcortical atlas is built, including the calling sequence for mri_ca_train. Nick On Fri, 2009-05-22 at 11:40 -0700, xfore...@ucla.edu wrote: > Dear Freesurfer Experts > > > I'm trying to train the program to recogniz

Re: [Freesurfer] longitudinal processing stream

Hi Dana, we're probably a couple of weeks off. We do have some tools for visualizing change maps, and can release that as well when get things together. cheers, Bruce On Fri, 22 May 2009, Dana W. Moore wrote: Hi freesurfer team, I noticed in the new version release notes that the longitu

[Freesurfer] subcortical volumes - wmparc vs aseg

Hi all, Is it preferable to use the volumes for subcortical structures listed in the wmparc.stats file or the aseg.stats file? I've noticed that they are different, and was wondering which was more accurate. Thanks, Nathan ___ Freesurfer mailing li

Re: [Freesurfer] subcortical volumes - wmparc vs aseg

the aseg. It's because the partial volume correction will be a bit different On Fri, 22 May 2009, Dankner, Nathan (NIH/NIMH) [F] wrote: Hi all, Is it preferable to use the volumes for subcortical structures listed in the wmparc.stats file or the aseg.stats file? I've noticed that they are d

[Freesurfer] FreeSurfer in Multiple Sclerosis some questions

I'm not sure whether the Freesurfer list is the appropriate place for this discussion or not, however I'll place the question here and if somebody has an idea we can discuss by pm. Regarding the paper: Focal thinning of the cerebral cortex in multiple sclerosis ( http://www.nmr.mgh.harvard.edu/~fis

[Freesurfer] .w files

Hi all, what do the .w files (generated, in my case, by mri_surf2cluster) contain? How can i view them/use them? thanks, sid. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/

Re: [Freesurfer] .w files

you can load them as overlays to tksurfer (ie, with the -overlay option). We generally recommend that people use mgh as a surface file output instead of .w doug Siddharth Srivastava wrote: Hi all, what do the .w files (generated, in my case, by mri_surf2cluster) contain? How can i