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Hi, It is technically possible to exclude certain slices, but this isn't coded easily into the standard tools. So unless it is of critical importance I would just delete the volumes. All the best, Mark On 21 Dec 2013, at 16:09, "Watson, Christopher" <[log in to unmask]> wrote: > I don't know for certain. My first thought is that it wouldn't make sense; however, someone who knows a lot more than I do should comment. > > Chris > ________________________________________ > From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Dorian P. [[log in to unmask]] > Sent: Saturday, December 21, 2013 9:37 AM > To: [log in to unmask] > Subject: Re: [FSL] Exclude diffusion slices from analysis > > Thank you Chris, > > Sounds interesting. I was hoping to remove single slices from some volumes rather than the entire volume? Would this make sense, or do I need absolutely to "kill" the entire volume containing the bad slice? > > Dorian > > > 2013/12/20 Watson, Christopher <[log in to unmask]<mailto:[log in to unmask]>> > I wrote a script to do that. Maybe this will work for you. > ________________________________________ > From: FSL - FMRIB's Software Library [[log in to unmask]<mailto:[log in to unmask]>] on behalf of Dorian P. [[log in to unmask]<mailto:[log in to unmask]>] > Sent: Friday, December 20, 2013 10:38 PM > To: [log in to unmask]<mailto:[log in to unmask]> > Subject: [FSL] Exclude diffusion slices from analysis > > Dear FSL list, > > I have some DTI data with random collapsed slices. I have marked these slices for every subject. Is there a way to exclude them from DTI analysis (bedpostx, probtrackx, dtifit, etc). > > Thank you and happy holidays. > > Dorian > TJU