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Hi, Thanks a lot for your replay but I still have some problems running: fslmeants -i masked_cluster.nii.gz --showall "tail -2" -o out.txt results with huge file (dose not seem like single coordinate) What did I do wrong Thanks Moran On Thu, Aug 19, 2010 at 11:28 AM, Mark Jenkinson <[log in to unmask]>wrote: > Hi, > > You can use fslmeants with the --showall command (and the > -i and -m to specify your intensity image and the appropriate > VOI mask). This will give you an output that contains three > rows with values for the x, y and z coordinates respectively, > and then the row containing your intensities. If you do not > need the coordinates then you can simply use "tail -2" > to give you the required values (as there is a blank line at > the very end that needs to be ignored). > > All the best, > Mark > > > > On 19 Aug 2010, at 10:18, Moran Artzi wrote: > > Hi, >> Flowing FAST segmentation I got 3 VOIs. >> I want to extract the value of the voxels in each cluster to a text file >> in order to scatter-plot them >> >> The fslmaths -M option gives the entire cluster mean value. >> How can I get it's voxels values? >> >> Thanks >> Moran >> >> >>