Dear Ludovica
Thanks for your previous responses. With your instructions I was able to run bianca and also got the output.
I feed segmented white matter input to bianca instead of lesion mask.
Example masterfile.txt
" CSRI-101-1-Flair.anat/Flair_biascorr_brain.nii.gz CSRI-101-1-Flair.anat/T1_brain_to-FLAIR_brain.nii.gz CSRI-101-1-Flair.anat/T2_to_MNI.mat CSRI-101-1-Flair.anat/T2_WHM_mask_flair.nii.gz "
So in the above command 'T2_WHM_mask_flair.nii.gz' file is generated from fsl_anat by using T2 flair image.
Is it the right way or manually I need to generate lesion mask?
It would be great if you could let me know other ways to generate lesion mask.
Thanks & regards
Vittal
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