Re: [Freesurfer] mri_glmfit with flag -pvr

2020-01-31 Thread Douglas N. Greve
It can be dods or doss. If you don't specify, then it will use doss. To specify, add doss after the fsgd file On 1/29/2020 10:53 AM, Vicky Shi wrote: External Email - Use Caution Hi Doug, Thank you so much for your respond. Greatly appreciate it!! I have one more question. If I run

Re: [Freesurfer] mri_glmfit with flag -pvr

2020-01-29 Thread Vicky Shi
External Email - Use Caution Hi Doug, Thank you so much for your respond. Greatly appreciate it!! I have one more question. If I run glm with FSGD and contrast file mentioned in my previous email, it should be DOSS, correct? However, when I tried to run it using the same FSGD, co

Re: [Freesurfer] mri_glmfit with flag -pvr

2020-01-10 Thread Greve, Douglas N.,Ph.D.
Your FSGD and command look correct. As for whether it is a good idea or not, I'm not sure (you're probably the best person to decide that). One thing to keep in mind is that if there are true thickness differences you might see some differences due to partial voluming. I would also remove the m

[Freesurfer] mri_glmfit with flag -pvr

2020-01-08 Thread Vicky Shi
External Email - Use Caution Dear Freesurfer team, I am running the glm analysis on CBF maps. I have two class and I want to see the group difference regressing out the cortex thickness. I know that I can add the average cortical thickness as one covariable in FSDG file. However,