1) DATA NEEDED FOR EACH SUBJECT:
- FLAIR bias field corrected, masked using make_bianca_mask (see wiki for details: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/BIANCA/Userguide#Masking)
- T1 bias field corrected, registered on FLAIR
- Linear transformation from FLAIR to MNI (.mat)

2) Build master file for subject(s) to segment (masterfile.txt).
One row per subject, info in the following order:

T1_biascorr_to_FLAIR.nii.gz placeholder FLAIR_to_MNI_lin.mat FLAIR_brain_restore_masked.nii.gz

"placeholder" text should be there to keep column information (in the training set this column contained the manual masks)

3) RUN BIANCA with the following settings:

bianca --singlefile=masterfile.txt --brainmaskfeaturenum=4 --querysubjectnum=<sub_num> --featuresubset=1,4 --matfeaturenum=3 --loadclassifierdata=wmh_15opdc -o <outputname> -v

For more details see FSL-BIANCA wiki: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/BIANCA