Re: [Freesurfer] mri_aparc2aseg on a custom annotation

2010-05-18 Thread Martin Kavec
Hi Dough, On Monday 17 May 2010 22:29:28 Douglas N Greve wrote: > So is the problem that cortex is 2000 every where including your label Yes this is the case, but I have already found a way around to get to where I wanted. mri_label2voi --help has the example which helped me. Thanks anyway, Ma

Re: [Freesurfer] mri_aparc2aseg on a custom annotation

2010-05-17 Thread Douglas N Greve
So is the problem that cortex is 2000 every where including your label or is it that it is 2000 away from you label and you want it to be 0? Note that unlabeled cortical voxels will come out at 2000 (for rh) and 1000 (for lh). Your labels should come out at 1000+N or 2000+N doug Martin Kavec w

[Freesurfer] mri_aparc2aseg on a custom annotation

2010-05-17 Thread Martin Kavec
Hi, I have a problem using mri_aparc2aseg with a custom annotations containing labels created manually in tksurfer and exported. Basically, I would like to end up with a volume file similar as aparc+aseg.mgz but containing only a strip of a cortex corresponding to a label defined using tksurfe