Hi all, Now I got some results by freesurfer, finally I selected two vertexs which the coordinate values were(Talx=-40.5, Taly= -14.5,Talz=-12.7 and Tal x=55.1, Tal y=-23.9, Tal z=-1.8 ), the corresponding regions reported by freesurfer were left superiortemporal and right superiortemporal. In the following step, I want to make the left and right superiortemporal as ROIs and observe the functional connectivity between the ROIs and the voxels in the whol brain. However, it is difficult for me to understand how to register this surface label to the epi volume. and how to created the masks in FSL using the labels and Harvard-Oxford atlas to ensure the correct anatomical location.
2013-04-29
limeilingcheng
You need to register you anatomical to the functional (example_func) with bbregister. Then use mri_label2vol to map aparc+aseg.mgz into the functional space. After that, you can use mri_segstats with --avgwf to extract the raw time course. After that, you're on your own.
doug
btw. We do not manage the Harvard-Oxford atlas
On 04/29/2013 03:36 AM, limeilingcheng wrote:
Hi all, Now I got some results by freesurfer, finally I selected two vertexs which the coordinate values were(Talx=-40.5, Taly= -14.5,Talz=-12.7 and Tal x=55.1, Tal y=-23.9, Tal z=-1.8 ), the corresponding regions reported by freesurfer were left superiortemporal and right superiortemporal. In the following step, I want to make the left and right superiortemporal as ROIs and observe the functional connectivity between the ROIs and the voxels in the whol brain. However, it is difficult for me to understand how to register this surface label to the epi volume. and how to created the masks in FSL using the labels and Harvard-Oxford atlas to ensure the correct anatomical location.
2013-04-29
limeilingcheng
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Douglas N Greve -
limeilingcheng