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>

Subject: Re: [Freesurfer] Visulaization of FreeSurfer-defined ROI

To: Jade <jadeinny8@gmail.com>

Cc: freesurfer@nmr.mgh.harvard.edu

Message-ID: <4EB45987.2040001@nmr.mgh.harvard.edu>

Content-Type: text/plain; charset=ISO-8859-1; format=flowed

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