Use mri_label2vol to map the segmentation into the fMRI space, then use mri_segstats using the --avgwf option to get time courses. Run it with --help to get examples

On 11/26/2020 9:16 AM, Francesca Strappini wrote:

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Dear FreeSurfer experts,

I'm trying to use the monkey atlas D99. First, I registered the segmentation atlas to the monkey anatomy through bbregister. Now, I need to resample the segmentation to the functional data and extract the mean value from each functional run using the ROIs contained in the segmentation as masks. I suppose I should mri_segstats but I'm not sure how. Any suggestion?

Thank you

Francesca

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Francesca Strappini, Ph.D.
Neurobiology Department
Weizmann Institute of Science
234 Herzl Street, Rehovot 7610001 Israel
Tel.: +972 58 444 2584
E-mail: francesca.strappini@weizmann.ac.il
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