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Hi - sure, if you'd like to upload it we can take a quick look. Please upload the files in a single compressed tarfile to http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi And then email me the upload ID. Cheers. On 14 Mar 2009, at 21:57, Michael Scheel wrote: > Hi fsl experts, i have a problem using bet on a T1 weighted image. > Although the image quality is pretty good bet fails to do a proper > brain extraction (I did use the -f and -g option in various > combination without success). > I then checked the image histogram in fslview. The histogram doesn't > look very good (peaks poorly seperated, esp. 1st and 2nd peak). > I have a different T1 volume where bet works perfectly and where the > histogram looks much much better. However on a visual comparison the > first dataset has a much better image quality (much better contrast > between the tissue types) so I was wondering how the image histogram > can be worse? I would be very happy if someone could take a short > look at both dataset and tell me what's going on. > > Thanks, Michael > --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve ---------------------------------------------------------------------------