Re: [Freesurfer] creating custom color table & annotation file

2014-05-21 Thread Bruce Fischl
Hi Maria I think we didn't realize there was any standard. As I remember, we do: r << 16 + g << 8 + b and stuff them into a 32 bit quantity cheers Bruce On Wed, 21 May 2014, Maria Jalbrzikowski wrote: Dear Freesurfer experts,   Last week I asked a question about altering annotation and

Re: [Freesurfer] creating custom color table & annotation file

2014-05-21 Thread Maria Jalbrzikowski
Dear Freesurfer experts, Last week I asked a question about altering annotation and color tables so that I could plot groups of vertices that covaried together. I have figured out the solution to this, if anyone else is trying to do this too. You can read in an annotation file with the read_an

Re: [Freesurfer] creating custom color table & annotation file

2014-05-19 Thread Douglas N Greve
You can try mris_label2annot. An alternative is to create the annoation in matlab and then use write_annotation.m (you might use read_annotation.m just to get the structure right) doug On 05/16/2014 07:02 PM, Maria Jalbrzikowski wrote: > Dear Freesurfer experts, > >I would like to get your

[Freesurfer] creating custom color table & annotation file

2014-05-16 Thread Maria Jalbrzikowski
Dear Freesurfer experts, I would like to get your help. I extracted cortical thickness values from each vertex from each of my individual subjects (example: path/subject_id/surf/lh.thickness.fsaverage.mgh). I then ran a covariance analysis over the whole group and identified "modules" or group