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Hi Leslie - To threshold to a certain percent of voxels, you can use -thrp Eugene On 27 July 2011 15:49, Leslie Engineering <[log in to unmask]> wrote: > Hello Experts- > I made an fROI mask from functional data and would like to threshold in a > way that extracts a specified percentage of the most significant voxels > within that mask. > I initially used fslmaths and -thr, but I find I am left with zero voxels. > So, I assume I am getting rid of a number rather than a percentage. If I > want to get rid of a percent, does it make sense to use fslmeants and > extract an average signal, divide my mask by the result and then threshold? > Or is there another way? >