Re: [Freesurfer] extract pial_lgi from v1.thresh labels

sorry, it is --slabel btw, there is documentation. If you run it without options it gives you a list of arguments as well as examples doug On 03/05/2014 11:32 AM, krista kelly wrote:

Thanks Doug, but when I try this I get the following error: Option --label unknown

On Wed, Mar 5, 2014 at 11:21 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

try
mri_segstats --label-thresh .5 --label BV20 lh V1.thresh.label --i
$SUBJECTS_DIR/BV20/surf/lh.pial_lgi --sum lh.V1.thresh.label.stats

On 03/05/2014 11:15 AM, krista kelly wrote:
> Hello,
>
> I would like to extract the pial_lgi data from Freesurfer's
V1.thresh
> labels but can't quite figure it out. I've tried adapting the
commands
> from the LGI Freesurfer tutorial as such:
>
> mri_segstats --label-thresh BV20 lh V1.thresh.label --i
> $SUBJECTS_DIR/BV20/surf/lh.pial_lgi --sum lh.V1.thresh.label.stats
>
> I've also tried
>
> mris_anatomical_stats -l lh.V1.thresh.label -f
> BV20/stats/lh.V1.thresh.label.stats BV20 lh pial_lgi
>
> but I've had no luck with either.
>
> I would appreciate any help!
>
> Thanks,
> Krista
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
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