Re: [Freesurfer] Extracting contrast data from mri_glmfit to graph

2019-09-09 Thread Greve, Douglas N.,Ph.D.
It is voodoo to do the same test that you used to generate the cluster (or have a graph that implies such a test). If you want to do a post-hoc test, that is totally fair. Eg, if you do an unsigned test between the two groups, you could then go back and do a signed test on the extraction. On

Re: [Freesurfer] Extracting contrast data from mri_glmfit to graph

2019-09-09 Thread cody samth
External Email - Use Caution Hi Douglas, That's good to know its still a form of voodoo correlation. If researchers wanted to avoid this, when looking for an interaction effect in a DODS model with a continuous variable yet still wanted to know the direction of the relationships

Re: [Freesurfer] Extracting contrast data from mri_glmfit to graph

2019-09-09 Thread Greve, Douglas N.,Ph.D.
Right, the ocn.dat files have data that is uncorrected in that sense and might need to nuisance factors removed before plotting. There is a design matrix in there (Xg.dat). You can load that into matlab along with the ocn.dat, compute beta = inv(X'*X)*(X'*ocn) to get the betas. You can then

Re: [Freesurfer] Extracting contrast data from mri_glmfit to graph

2019-09-08 Thread cody samth
External Email - Use Caution Hi Douglas, thanks for your response. >They should not, but the reason it fairly convoluted. When you get a >cluster after running mri_glmfit-sim, that cluster is on fsaverage which >is an average of 40 subjects. The area of a vertex is computed as

Re: [Freesurfer] Extracting contrast data from mri_glmfit to graph

2019-09-04 Thread Greve, Douglas N.,Ph.D.
On 9/3/19 12:05 PM, cody samth wrote: > > External Email - Use Caution > > Hello, > > I have a question regarding how to graph results that came from a > vertex wise analysis using the command mri_glmfit and mri_glmfit-sim. > > I was interested in investigating an interaction effect

[Freesurfer] Extracting contrast data from mri_glmfit to graph

2019-09-03 Thread cody samth
External Email - Use Caution Hello, I have a question regarding how to graph results that came from a vertex wise analysis using the command mri_glmfit and mri_glmfit-sim. I was interested in investigating an interaction effect between groups and my variable of interest