Sorry to hear that your relationship with 3dMVM has been strained recently!
> What is the difference between using -wsE2 and -wsMVT?
Reading the help information now, I realize that the description does need more clarifications. For each effect that involves a within-subject factor, there are two ways to test the effect:
1) conventional univariate approach (UVT)
2) within-subject multivariate approach (wsMVT)
By default, 3dMVM outputs the univariate testing (UVT) results. Option -wsMVT gives an additional (and separate) output (wsMVT). On the other hand, option -wsE2 merges the two (UVT and wsMVT) in the output. So you may add either of them, but probably not both.
Most of the time UVT is more powerful (e.g., higher F-values) than wsMVT, but there are exceptions. You can see this by comparing UVT with wsMVT, or comparing UVT with wsE2.
Hope the above clarifications will help you reinstall your relationship with 3dMVM.
Gang
Edited 2 time(s). Last edit at 05/20/2015 05:54PM by Gang.
