Dwi2mask: holes in mask images

[Alistair_Perry]

@SimonDavis

But more to the problem in this thread, I’ve found over the past couple of days that a back-and-forth procedure is working best, with first a very lenient bet on all 3 b0’s (f = 0.2), average the b0’s, bias correction, then dwi2mask.

I’m having success with a similar procedure.

I perform bet2 on the meanb0 image post-eddy correction, then use the subsequent mask for dwibiascorrect. After this, I use dwi2mask on the biascorrected image.

For high b-value date, It’s worthy to note that this procedure only works when using -fsl argument into dwibiascorrect.

With ants correction:

Now FSL: