[Freesurfer] 164k to fsaverage

2012-05-04 Thread Sam Carpenter
Hi all. (apologies to those on both free surfer & caret list serves) I've having issues trying to convert some regions that are in .label.gii format. I'm trying to take them from Caret 164k mesh space into fsaverage space to be viewed on Free Surfer. I've successfully brought similar data

[Freesurfer] Assigning unlabeled vertices to a label

2012-05-17 Thread Sam Carpenter
Hey All, I currently have a cortical parcellation with some unlabeled vertices in it. I'm wondering if anybody knows how to assign a series of unlabeled vertices to a single .label file. These vertices are copious and minute, trying to avoid several hundred 'click, save label as..' repetition

[Freesurfer] Assigning unlabeled vertices to a label

2012-05-22 Thread Sam Carpenter
Hey All, I currently have a cortical parcellation with some unlabeled vertices in it. I'm wondering if anybody knows how to assign a series of unlabeled vertices to a single .label file. These vertices are copious and minute, trying to avoid several hundred 'click, save label as..' repetition

[Freesurfer] Converting labels into .annot

2012-05-30 Thread Sam Carpenter
Hi all, We have a series of labels (over 100) that encompass the majority of the cortex, but some minute vertices remained unlabeled. We've tried several attempts to make this .annot file and as well as attempts to label the unlabeled vertices (from a previous post 'labeling unlabeled vertices

Re: [Freesurfer] Converting labels into .annot

2012-05-30 Thread Sam Carpenter
ations that >will >smooth out rough edges. > >cheers >Bruce > > >On Wed, 30 May 2012, >Sam Carpenter wrote: > >> Hi all, >> >> We have a series of labels (over 100) that encompass the majority of the >> cortex, but some minute vertices remained

[Freesurfer] Finding name of labels

2012-07-10 Thread Sam Carpenter
Hi all, I have a simple problem that hopefully has a simple solution. I'm going through an annotation file, trying to find the names of select labels. In the tksurfer window at the bottom right it displays the name of the label file that the curser window is hovering over, BUT it only display

[Freesurfer] Separating Specific Areas from a .nii.gz file

2012-08-16 Thread Sam Carpenter
Dear life savers, headache relievers and brain science dreamers, PROLOG: I'm trying to separate out some regions from a .nii.gz file. I start with a surface parcellation in .annot (Freesurfer land) that I convert to EXAMPLE.nii.gz using mri_aparc2aseg. THE GOAL: To get a .nii.gz file for each o