You can run mri_annotation2label to break the annotation up into smaller labels, then display a single label in tksurfer (you can load it from the GUI or on the cmd line with -label). doug
Simmons, Andy wrote:
Dear Doug,
What would the equivalent process for a surface rather than a volume ?
Best wishes,
Andy SImmons
Date: Fri, 04 Nov 2011 17:30:47 -0400
From: Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Visulaization of FreeSurfer-defined ROI
To: Jade <jadeinny8@gmail.com mailto:jadeinny8@gmail.com>
Cc: freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu
Message-ID: <4EB45987.2040001@nmr.mgh.harvard.edu mailto:4EB45987.2040001@nmr.mgh.harvard.edu>
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Try running mri_binarize with the --match option. The match value should be the id number for your ROI as defined in $FREESURFER_HOME/FreeSurferColorLUT.txt (eg, left hippo is 17). You can then load this as a segmentation or as an overlay in tkmedit.
doug
Jade wrote:
Hello Freesurfer experts,
I am a beginner in using Freesurfer.
I want to make a figure illustrates a specific area of ROIs (e.g.,
lh. hippocampus). How can I visulaize the Freesurfer definded ROIs?
Thanks in advance!
Dr Andy Simmons
Reader in Neuroimaging & Consultant Clinical Scientist
Centre for Neuroimaging Sciences and NIHR Biomedical Research Centre
Institute of Psychiatry, Box P089
Kings College London
De Crespigny Park
London, SE5 8AF, UK
Email - andy.simmons@kcl.ac.uk
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