You have applied a lot of smoothing, and the tables don't go up that high. Usually people will apply 5-10mm of smoothing. If you really want that much smoothing, you should use permutation. See https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0...
On 5/21/2019 10:09 AM, Amrita Bedi wrote:
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---------- Forwarded message ---------- From: abedi000@citymail.cuny.edumailto:abedi000@citymail.cuny.edu <abedi000@citymail.cuny.edumailto:abedi000@citymail.cuny.edu> Date: Tuesday, May 21, 2019 Subject: To: "amibedi273@gmail.commailto:amibedi273@gmail.com" <amibedi273@gmail.commailto:amibedi273@gmail.com>
Hi Freesurfer developers,
While running the mri glmfit sim command for a smoothing of 30 FWHM, I got the following error-
Original mri_glmfit command line: cmdline mri_glmfit.bin --y lh.BINGE15.g2v1.30B.mgh --fsgd BINGE15.g2v1.txt dods --C BINGE.g2v1.group-x-LDH_age.mtx --surf fsaverage lh --cortex --glmdir lh.BINGE15_g2v1.group-x-LDH_age.30B.glmdir
DoSim = 0 UseCache = 1 DoPoll = 0 DoPBSubmit = 0 DoBackground = 0 DiagCluster = 0 gd2mtx = dods fwhm = 53.156463 ERROR: cannot find /usr/local/freesurfer/average/mult-comp-cor/fsaverage/lh/cortex/fwhm53/abs/th13/mc-z.csd
I researched on the Freesurfer wiki page and found Dr Greve answered a similar question saying-"When running mri_glmfit-sim, add --cache-dir /path/to/mult-comp-cor" but I dont understand. What is this path?
Thank You!
Best, Amrita
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