Hello,

I will be running BIANCA in FSL after some quality control with the requisite files to be listed in the Masterfile. I am examining my skull-strip files (in FLAIR space), and most skull strips still have some dura or black space occupied by CSF leftover. How sensitive is BIANCA to some leftover non-cortical material, or is anyone aware of an analysis that examines BIANCA's output as a function of thoroughness of skull strip, or (on the Freesurfer side) have suggestions for gcut or wsthresh parameters that are good for BIANCA? The skull strip was done in Freesurfer's recon-all process, then the resulting brainmask was registered into FLAIR space with FSL. Thanks in advance!