To get the t-score, compute the square root of the F, like
fscalc F.mgh sqrt -o t.mgh
You can then get the clusters with
mri_surfcluster --in t.mgh --thmin t-threshold --sign sign --no-adjust
--sum sumfile --ocn ocn.mgh
ocn (output cluster number) will be a map with the custer number as the
vertex value, you can then run
mri_segstats --i t.mgh --seg ocn.mgh --exludeid 0 --accumulate --o
sumoft.dat
somoft.dat will be the sum of ts for each cluster
On 12/12/16 4:17 PM, Abigail Noyce wrote:
Hi Doug et al,
I would like to get a different cluster summary stat out of
mri_glmfit-sim. Rather than size, I'd like to use the "sum of
t-scores" (after Maris & Oostenwald 2007, for example). That is, set a
cluster inclusion threshold, and then for each cluster of adjacent
vertices that clear the threshold, sum their t-scores. For the
permutation significance testing, then, the largest such clusterwise
sum would be the statistic used to generate the null distribution...
I'm happy to write my own scripts, but can't figure out where to try
to pull this number out.
Thanks!
Abby Noyce
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