[HCP-Users] help on Simple higher level FEAT analysis

2018-08-20 Thread Linnman, Clas,Ph.D.
Hi, I am trying to do a simple higher level FEAT analysis on some task fMRI data. I would like to correlate a variable to the motor responses. From https://wiki.humanconnectome.org/display/PublicData/Advice+for+FEAT+Analysis+of+HCP+task+fMRI+data I tried the following Higher-level Analysis

Re: [HCP-Users] PreFreeSurfer and FreeSurfer pipelines questions

2018-08-20 Thread Glasser, Matthew
I think you need to ask that on the FreeSurfer list as that is not an HCP Pipeline issue. Please tell them what version of FreeSurfer you are using. Matt. From: Shachar Gal mailto:gal.shac...@gmail.com>> Date: Monday, August 20, 2018 at 10:53 AM To: Matt Glasser mailto:glass...@wustl.edu>> Cc:

Re: [HCP-Users] PreFreeSurfer and FreeSurfer pipelines questions

2018-08-20 Thread Glasser, Matthew
1. You can get the gradient distortion coefficients from your scanner. NONE can be set and for some scanners it does not make much difference (e.g. Trio). 2. recon_all_seed is a random number seed. Presumably this is an optional argument, but you could set 12345. 3. Need to look at the

Re: [HCP-Users] help on Simple higher level FEAT analysis

2018-08-20 Thread Harms, Michael
Hi, FSL/FEAT are not currently equipped to handle grayordinate data. We have examples of a “third-level” (across subject) analyses as part of the Practicals in the HCP Course. The content for the 2018 course (in June) will hopefully become available online in the near future. Until then, the