[Freesurfer] Unsubscribing

Hi , I have not used this for years, could you please take me off the mailing list? Thank you Barnali Basu Cell : 425 638 2936 Home: 206 257 0174 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman

[Freesurfer] Mri_convert issue

you throw some light on this? FYI, I have converted a .vmr (from Brainvoyager) to .nii and wanting to convert it to .mgz so that i can work with it on Freesurfer. Thanks Barnali Basu ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu ht

[Freesurfer] error reading curvature file

leFile failed. % ERROR: number of vertices in /usr/local/freesurfer/subjects/bert/surf/lh.curv does not match surface (146926,131870)surfer: error reading curvature file Thanks -- Barnali Basu ___ Freesurfer mailing list Freesurfer@nm

[Freesurfer] ROI label Error

attached. Any help on how to load this label will be appreciated -- Barnali Basu test_ROI.voi Description: Binary data t.roi.label Description: Binary data ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu

Re: [Freesurfer] ROIs of BV not coinciding with FS

abel file need to be in RAS, not > talairach. > http://surfer.nmr.mgh.harvard.edu/fswiki/CoordinateSystems > > good luck, > brian > > On Thu, Apr 9, 2009 at 5:46 PM, Barnali Basu wrote: > >> Hello >> >> Thanks for your previous responses. Those have been helpful

Re: [Freesurfer] ROIs of BV not coinciding with FS

an; 0.000 0.000 0.000 1.000; Any help? On Sat, Apr 11, 2009 at 3:05 PM, Bruce Fischl wrote: > Hi Barnali, > > we never resample into tal coords, which is why you need to generate the > ROIs in native RAS space. > > cheers, > Bruce > > On Sat, 11 Apr 2009

Re: [Freesurfer] ROIs of BV not coinciding with FS

Thu, 2009-04-16 at 13:36 -0700, Barnali Basu wrote: > > Hi > > > > We are trying to another method to open a BV ROI in FS. My colleague > > has sent me ROI generated in BV in Nifti format, which when I try to > > open in FS gives the following error > > > >

[Freesurfer] multiple subjects on Linux

? Your suggestions will be appreciated Thanks and regards -- Barnali Basu ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] TAL QA check failed

is the best way to get it fixed. Previously i had fixed similar error and i had fixed it with tkregister2, but z-score was different Thanks and Regards -- Barnali Basu Cell : 425 638 2936 Home: 206 257 0174 ___ Freesurfer mailing list Freesur

Re: [Freesurfer] TAL QA check failed

No. Do I need to look at it with tkregister? On Mon, Jun 8, 2009 at 5:05 PM, Douglas N Greve wrote: > did the you look at the registration? > > Barnali Basu wrote: > >> Experts, >> >> I got the following error while running a subject with recon-all >> aut

[Freesurfer] RoI,Space

Experts, I have some snapshots of ROIs made in BrainVoyager (in non-TAL space on inflated brain, as well as ones projected onto TAL space). I need to take the above as reference and make near-exact ones (ROIs) using Freesurfer on inflated brains. Which one of the above do I use as my reference B

Re: [Freesurfer] RoI,Space

ce, in which case we will automatically > figure out where it should be in the volume (based on the ?h.white surface), > or you can draw it directly in the volume. The surface is probably a lot > easier though. > cheers > Bruce > > On Wed, 8 Jul 2009, Barnali Basu wrote: > &g

Re: [Freesurfer] RoI,Space

tkmedit to see it in the volume if you > want. > > > cheers, > Bruce > On Wed, 8 Jul 2009, Barnali Basu wrote: > > Thanks Bruce. How do I figure out where it should be in the volume based >> on >> ?h.white.surface ? >> >> >> >> On Wed, Ju

[Freesurfer] pial surface

Experts, I have successfully run recon-all (all the 3 processes autorecon1,2 and 3) on a subject. When I see the surfaces on tksurfer, I dont get to see the pial surface. I gather I could construct Pial surface by running autorecon2-pial. Would this affect in any way, since I have already finish

[Freesurfer] recon-all taking long time

Experts, I have been working on Freesurfer last 5 months and initially the recon processes were within normal time limits. However, I am working on a different set of subjects now and its consuming days together. For my current data,autorecon1 is fine, it stops at a particular point in autorecon2

Re: [Freesurfer] recon-all taking long time

s subjects and now it doesnt. Thanks Barnali On Thu, Jul 9, 2009 at 4:44 PM, Bruce Fischl wrote: > this is almost certainly a bug that is fixed in the current version. Try > updating and let us know if it doesn't fix the problem > > On Thu, 9 Jul 2009, Barnali Basu wrote: >

[Freesurfer] making subject directory

> mksubjdirs ja mkdir: cannot create directory `ja': Permission denied ERROR: creating directory ja I tried doing chmod 755 from root, it says operation not possible. Where am I going wrong Thanks -- Barnali Basu Cell : 425 638 2936 Home: 206

[Freesurfer] Surface area of ROI

Experts, I have labels drawn on surfaces of individual subjects. I need to find the surface area of each (one on each surface). Is there a way I could do it? Thanks -- Barnali Basu Cell : 425 638 2936 Home: 206 257 0174 ___ Freesurfer mailing list