You can binarize the final cluster map (mri_binarize --i clustermap.mgz
--min 0.5 --o bin.clustermap.mgz)
Then run mri_segstats --annot fsaverage lh aparc --i bin.clustermap.mgz
The mean value will be the fraction of the vertices in the ROI that
belongs to (any) significant cluster
On 7/22/2020 9:36 AM, Fred Sampedro wrote:
External Email - Use Caution
Dear FS experts,
From an statistical map obtained by mri_glmfit-sim, say a
cache.th13.abs.sig.masked.mgh map, I would like to list all the
significant regions from all clusters in the following intuitive way,
for instance:
Supramarginal gyrus: X vertices, X mm^2, peak T-value=X
Superior frontal gyrus: Y vertices, Y mm^2, peak T-value=Y
...
That is, the % of significant vertices in the statistical map
belonging to each region of the default FS atlas. I know that the
cache.th13.abs.sig.cluster.summary file "summarizes" each cluster by a
label, but clearly large clusters are made of several different
anatomical regions that I would like to report.
In other words, I wonder if there's an easy way to obtain a cluster
description report similar to the one provided by the xjview toolbox
for voxelbased maps in MNI space.
I know I could probably achieve it by scripting, i.e. but looping
through each ROI extracted from an atlas in fsaverage space and
applying a mask with the glmfit map and then computing the overlap and
such. But probably there's an easir way, or someone has already
thought about it.
I tried to search about this topic in the archive but failed to find a
clear solution, probably I was not searching by the appropriate words.
Thanks a lot in advance,
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