Re: [Freesurfer] Monte Carlo simulation - Longitudinal Pipeline

2014-03-29 Thread Pedro Rosa
Dear Doug and Jorge, Thank you very much for your help. I found another message in the list (https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2013-November/034649.html) in which you suggested a way of using MC in mri_glmfit-sim by creating “fake files”, which would not be read by the

[Freesurfer] Questions aobut using monte carlo sim in Qdec

2014-03-29 Thread Ashley Shurick
Hi, I have some questions about using monte carlo sim in qdec: First of all, I just want to verify it's ok to use the simulation with a whole-brain analysis and not just an ROI analysis. Second, I'm a bit confused about how to calculate the p-threshold for my max clusters. Looking here:

[Freesurfer] SEEDING in Tracula

2014-03-29 Thread Durai Arasan
Hi Freesurfer experts, So I have seen studies where tracula was used to examine one of the 18 major tracts. However can tracula perform seed based probabilistic tractography? i.e. can I seed ANY region and specify targets etc? I guess I am asking if it can do LOCAL tractography of any kind?