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Dear Freesurfer experts,
I'm running (FS 7.1.1) segmentThalamicNuclei.sh on T1 scan from recon-all. On a sample of about 100 subjects I've found an average volume of 250 mm^3 and 290 mm^3 for LGN-left and LGN-right, respectively. Consistent with literature, I would expect an LGN volume around the order of 100 mm^3. Do you have any suggestions to address this issue?
Best,
Marco
An example of left thalamic nuclei stats on a subject:
# Left Thalamic nuclei volume statistics as created by segmentThalamicNuclei.sh 1 1 0 179.160119 AV 2 2 0 89.639229 CeM 3 3 0 40.504433 CL 4 4 0 298.704524 CM 5 5 0 29.204221 LD 6 6 0 323.610060 LGN 7 7 0 172.804240 LP 8 8 0 16.699212 L-Sg 9 9 0 370.292762 MDl 10 10 0 1028.359432 MDm 11 11 0 99.816768 MGN 12 12 0 16.307111 MV(Re) 13 13 0 4.583480 Pc 14 14 0 46.055844 Pf 15 15 0 8.414055 Pt 16 16 0 274.769665 PuA 17 17 0 276.059756 PuI 18 18 0 197.470981 PuL 19 19 0 1329.257389 PuM 20 20 0 540.769724 VA 21 21 0 48.461021 VAmc 22 22 0 879.500725 VLa 23 23 0 1143.223136 VLp 24 24 0 33.606403 VM 25 25 0 1224.126516 VPL 26 26 0 8671.400807 Whole_thalamus