Dear Experts,

I'd like to make ROI masks based on a localiser scan. Using the uncorrected zstat images, I have clear clusters for the areas of interest, but there are also a lot of other clusters (sometimes large sometimes small) that I would like to exclude from this mask.

I have done this before using the following command which takes all values above a threshold to make a mask (but the localiser mask I was using did not have other clusters at this threshold so was not a problem):

fslmaths zstat1.nii.gz -thr 3.5 -bin output_mask.nii.gz

I also know I can find the info about the clusters in an image by using the Cluster function. Could I select one of the clusters, either in FSL view or using some function (e.g. cluster) and create an ROI mask?

Thank you
Rob