Welcome Olatz!
I just wanted to check if they are correct.
All seems fine as far as hypothesis testing is concerned. There are however consequences to be aware of if doing anything that involves interpretation of the raw GLM beta coefficients.
Also, does
fixelcfestatsstill not test more than one hypothesis at a time, or can I have both contrasts in the same contrast.txt file?
As of version 3.0.0 (relevant post in changelog), the contrast matrix can have multiple rows, and each is used to define a stand-alone hypothesis.
Cheers
Rob