In the past I’ve shown how to use 3dttest++ to do one-sample, paired, and two-sample t-tests for whole-brain maps in AFNI.  Occasionally there is an instance where you want to quickly generate a series of t-tests for all participants at once.  Most people (including me until recently) would simply loop over their gen_group_command.py script several […]

I don’t usually post brief updates like this, but a recent update to afni_proc.py has me really excited. As of the May 13th 2014 binaries of AFNI, you can now expect your resting state data to process considerably faster thanks to a new-ish program called 3dTproject.  3dTproject is meant to replace 3dDeconvolve for resting state […]

It’s been a while since I’ve touched on this topic (Part 1, Part 2).  Recently the topic of doing t-tests has come up a lot in the area around where my desk is situated.  In vastly over simplified thinking, I think the three most common approaches to using t-tests in MRI data are as follows: […]

I had previous posted about displaying the fMRI results onto the cortical surface.  It’s been brought to my attention that this post wasn’t as clear as it could be!  I know, it happens from time to time!  So let’s try this again!  Let’s start with a straightforward topic – processing data at the single-subejct level on […]