Hi Silas
I think we already provide the information you want as we tabulate the
thickness of the different parcels in the various files in each subject's
stats dir. If you want to do the same thing with a different set of labels
draw the labels on fsaverage, use mri_label2label to map them to individual
subjects, then run mris_anatomical_stats with the -l <label file> option to
compute the stats within your new labels.
cheers
Bruec
On Wed, 22 Jul 2015, Silas wrote:
Hi Bruce,
I would like to make a ROI analysis where i'll investigate cortical
thickness of the labels - and afterwards use the labels to make a ROI
analysis of fMRI data and t1t2ratio data which is mapped onto the fsaverage
(I've already made an analysis "on the surface"). My question is how to
investigate e.g. cortical thickness of the labels. What command do i use? Do
i have to run recon-all again with the new label (and if, which steps of
recon-all is necessary to re-run?)?
Thanks!
Best, Silas
> Date: Tue, 21 Jul 2015 10:53:02 -0400
> From: fis...@nmr.mgh.harvard.edu
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] How to deal with labels and structural data
>
> Hi Silas
>
> what do you want to do with the labels? As for whether to do it on
> fsaverage or individuals, you could start with fsaverage and map it to
> your other subjects and see how accurate it looks
>
> cheers
> Bruce
> On Tue, 21 Jul 2015, Silas
> wrote:
>
> > Dear Freesurfer team,
> > I've created my own labels using tksurfer and common anatomical
guidelines -
> > and my next step is to apply these labels to my subjects and analyze
(ROI)
> > cortical thickness or volume (first of all), functional data and
myelination
> > data.
> > 1 - Do you suggest drawing a label on the surface of fsaverage and
applying
> > this label to the other subjects (e.g. using mri_label2label) - or
drawing a
> > label on each subjects surface?
> > 2 - What is my next step? Do i have to run recon-all again with my new
label
> > in the labels folder - or should i experiment with mri_label2vol and
> > mri_label2annot?
> > 3 - Do you have an existing guide in this kind of analysis?
> >
> > Thanks! Best, Silas
> >
> >
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