Re: [Freesurfer] recon-all with MT images?

> an MT subtraction that enhances gray/white contrast though. > > cheers, > Bruce > On Mon, 2 Mar > 2009, Lucia Garrido wrote: > >> Dear Freesurfers, >> >> I was wondering whether it would be possible to run recon-all with MT >> images? My final aim is

[Freesurfer] recon-all with MT images?

Dear Freesurfers, I was wondering whether it would be possible to run recon-all with MT images? My final aim is to compare cortical thickness between two groups. I've done this with T1 weighted images, but was wondering whether i could also do with MT images. Segmentation in SPM worked really well

Re: [Freesurfer] cortical thickness in temporal pole

ld it be possible to let me know? I couldn't find that in any paper. Many thanks, Lucia > Hi Lucia, > > temporal pole is among the thickest cortical regions, but you should > visually inspect your data to check that it is accurate. > > cheers, > Bruce > > >

[Freesurfer] cortical thickness in temporal pole

Dear all, I'm comparing average cortical thickness values between groups using regions defined in the aparc files. I find significant differences in the right temporal pole. I was expecting difference here, but I'm concerned about the mean values of thickness. For controls, that value is 4.01, whe

Re: [Freesurfer] error in map label to subject

to the right directory again. > > > Sita. > > > On Tue, 3 Feb 2009, Lucia Garrido wrote: > >> Many thanks for your e-mail. >> >> Yes, I've noticed that. But I made sure the SUBJECTS_DIR is the right >> one. >> Everything else is running without pr

Re: [Freesurfer] error in map label to subject

_DIR is set to /tmp/qdec_project_archive, which is probably > wrong. > > Lucia Garrido wrote: >> Dear all, >> >> I'm using Qdec and wanted to map an ROI to all participants in the >> study, >> but I always get an error. I've used FS 4.0.2 for recon-al

[Freesurfer] error in map label to subject

Dear all, I'm using Qdec and wanted to map an ROI to all participants in the study, but I always get an error. I've used FS 4.0.2 for recon-all for all subects. Now I'm running stats with FS 4.1.0 (I did 'recon-all -qcache -subjid ' for each person using version 4.1.0). I'm using Debian.the qdec

Re: [Freesurfer] talairach registration

idual talairach registrations contribute to the final talairach coordinates of group comparison results? Many thanks, Lucia > Hi Lucia, > > we almost never use the talairach except for reporting purposes. > > cheers, > Bruce > > On Tue, 20 Jan 2009, Lucia Garrido wrote: >

[Freesurfer] talairach registration

Dear freesurfers, I'm having some troubles deciding whether the output from the Tailarach registration is good or not. I don't have hugely distorted brains as can be seen in the tutorials. But though they seem roughly aligned, there are some cases in which it seems it could benefit from changing t