Hi, A bit more info: the stack of thickness maps consists of lh.thickness.fwhm15.fsaverage.mghs that were created after -qcache. I used mri_concat --f --o to create the stack of mghs. I also noticed that the vertex values are in the range of 20-30, whereas those in the lh.thickness.fsvaerage mghs are in the expected range.
Should I be using this for the calculation of the thickness in the clusters instead? Best Wishes, Elijah On Sat, Nov 12, 2016 at 12:15 AM, Elijah Mak <fk...@medschl.cam.ac.uk> wrote: > Thanks, Doug. > > It works but I am not sure if the values I'm getting are correct. Is this > supposed to be reporting the mean cortical thickness of each cluster? I > have pasted the output below from the avgwf below. The names of the > clusters correspond to the regions from the "summary" text, am I right? > > > Group lh_fusiform lh_precentral lh_insular lh_precuneus lh_parsorbitalis > 1 24.29454 29.53935 14.24736 28.97924 31.54577 > 1 25.68872 28.26156 17.47828 28.20604 30.38902 > 2 25.46281 30.75879 19.34943 29.59019 32.0404 > 2 25.55514 27.23871 17.27937 29.14274 29.75657 > > Another related question: Is it possible to simply take the mean cortical > thickness across the voxels exceeding p<0.001 from the uncorrected sig.mgh? > > Thanks again! > > Best Wishes, > Elijah > > -- Elijah Mak, Gates Scholar PhD Candidate *|* Psychiatry University of Cambridge Trinity College, Cambridge, CB2 1TQ
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