> To use 3dcalc to get the contrast, do I just subtract the beta coefficients?
Yes, that's right.
> How would I get t-values for that?
For that you'd have to get from 3dDeconvolve or 3dREMLfit.
> I have 6 independent variables, and they are all fractional anisotropy values of different white matter tracts.
> So I have a value for each person.
Do you mean that you have actually 6 values per subjects? You can use 3dttest++ (beta values only as input) or 3dMEMA (beta plus t-stat as input).
Gang