[MINC-users] Providing masks in CIVET?

[Claude LEPAGE]

Hi Gabriel,

mincbet is an improved version of FSL bet, based on minc volumes.
The masks from mincbet are generally excellent, except in some 
extreme cases (infants, pathologies with huge ventricles in old
subjects).

The mask in CIVET-1.1.12 and CIVET-2.0.0 is used as a white matter
mask only. It is not used as a gray matter mask. The pial boundary
is determined by expansion of the white surface up to CSF. It is
very rare that the mask will truncate white matter. Beware that
the mask has evolved greatly since CIVET-1.1.11 when a comparison
between BeAST and an older version of mincbet was done..

Claude

>
> Hi all,
>
> I have a question regarding the specification of masks for CIVET. I see
> that CIVET uses mincbet to produce brain masks during its processing and
> that it is possible to provide pre-generated masks (from something like
> BeAST).
>
> Where do these masks come into play during processing and if they're not
> perfect is there a possibility of screwing up the processing? I would
> expect that BeAST generated masks will be superior to mincbet masks in most
> cases.
>
> Thanks for your help!
>
> -- 
> Gabriel A. Devenyi B.Eng. Ph.D.
> Research Computing Associate
> Computational Brain Anatomy Laboratory
> Cerebral Imaging Center
> Douglas Mental Health University Institute
> McGill University
> t: 514.761.6131x4781
> e: gdevenyi at gmail.com
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>