[Freesurfer] A few questions regarding Monte Carlo and mri_glmfit

Hello Freesurfer Gurus, I have been conducting cortical thickness and LGI analyses at my lab using Qdec. We have gotten some really promising results thanks to your help! However I have a few withstanding questions which need answered to make sure our results are methodologically valid: 1) After

[Freesurfer] Can one adjust CWP Threshold in Qdec?

Hi Freesurfer Experts, I was wondering if there is a way for me to adjust the default CWP of p .01 to p .05 on Qdec? I saw that it is possible using cwpvalthresh .05 with glmfit, but as I have set up everything with Qdec, it would be much easier and save me time to do this via Qdec. Thanks so

[Freesurfer] Issue with smoothing in local gyrification process

Hello Freesurfer Gurus, I am trying to compute LGI analysis using Qdec and have successfully loaded my qdec.table.dat file as well as created .Qrecrc to include the new pial_lgi measure. However, when I try to analyze using this measure (or with any measure for that matter), an error pops up

[Freesurfer] Error with asegstats2table function

Hello Freesurfer Experts, Thanks so much again for all of your help. I am trying to complete the Anatomical ROI Analysis Tutorial because I will need to use segmentation volumes for an experiment we`re running in the lab. In particular, I am trying to complete the group stats files part of the

[Freesurfer] Error when completing cortical thickness analysis

I am conducting cortical thickness analyses between hundreds of individuals for a study we are conducting. I was getting this error Unrecognized sub-option flag 'annot_outline'. and so I tried to do the group analysis tutorial and input the command from the end of it (please see command below)

[Freesurfer] Error when launching qdec

Hello Freesurfer Community, I am now having issues getting qdec to launch as well. The qdec window pops up momentarily but then disappears. This is the error message I get: error: xp_attach_gl_context returned: 2 X Error of failed request: 0 Major opcode of failed request: 149 (GLX)

[Freesurfer] Bus error still when trying to launch tksurfer

variable interaction (Bronwyn Overs) 2. Bus error when trying to launch tksurfer (Claire Morley) 3. Re: Bus error when trying to launch tksurfer (J?rgen H?nggi) 4. Re: Bus error when trying to launch tksurfer (Bruce Fischl) 5. Do not have 'recon edit' button! Please help

[Freesurfer] Bus error when trying to launch tksurfer

Good Morning, I have now been able to get the testing command: tksurfer bert rh pial to run, but it stops midway and issues a bus error. Please see the following script: DBM-Users-MacBook-Pro-4:~ dbmuser$ tksurfer bert rh pial subject is bert hemiis rh surface is pial surfer: current subjects