I would use mri_segstats with the --annot option. You can add --mul 1000 to multiply all values by 1000 if the precision is not good enough
On 06/01/2017 11:06 AM, Damien MARIE wrote:
Dear experts,
I would like to extract the mean left / right R1 value for each of my subjects (R1 = 1/T1). I did that with mris_anatomical_stats (see below) and I’m assuming that “ average cortical thickness = 0.001 mm +- 0.000 mm “ is my average R1 value (in that case for the right hemi). Is that correct?
Now I would like to get my average hemi R1 value with 5 decimal numbers if possible because R1 values are very low, for instance in the same subject considering the whole brain average R1 is equal to 0.000737 . Is it possible ?
Thank you and best,
Damien
mris_anatomical_stats -t rh.R1.mgh ct_pp2_N4_bet_MP2RAGEcorr rh outputting results to R1file... using thickness file rh.R1.mgh. reading volume /home/damien/bin/freesurfer6/subjects/ct_pp2_N4_bet_MP2RAGEcorr/mri/wm.mgz... reading input surface /home/damien/bin/freesurfer6/subjects/ct_pp2_N4_bet_MP2RAGEcorr/surf/rh.white... Using TH3 vertex volume calc Total face volume 293919 Total vertex volume 289553 (mask=0) reading input pial surface /home/damien/bin/freesurfer6/subjects/ct_pp2_N4_bet_MP2RAGEcorr/surf/rh.pial... reading input white surface /home/damien/bin/freesurfer6/subjects/ct_pp2_N4_bet_MP2RAGEcorr/surf/rh.white... structure is "/home/damien/bin/freesurfer6/subjects/ct_pp2_N4_bet_MP2RAGEcorr/surf/rh.white" number of vertices = 148874 total surface area = 103857 mm^2 total gray matter volume = 289553 mm^3 average cortical thickness = 0.001 mm +- 0.000 mm average integrated rectified mean curvature = 0.136 average integrated rectified Gaussian curvature = 0.030 folding index = 2174 intrinsic curvature index = 190.6
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