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Hi, you can open the images with fslview and check the mask and the data. I would check the mask first, make sure it is 1 everywhere inside the brain. A non-DW volume will have a strong T2-weighted contrast. Stam On 18 Feb 2011, at 13:57, Catherine Delnooz wrote: > Hi Stam, > > Thanks for your quick reply. > What's best way of doing that? I'm quite new in the fsl... > > Cheers, > Catherine > > ------------------------------------------------------------------------ > C. C. S. Delnooz , MD > Resident in neurology > Department of Neurology (HP 935) > Radboud University Nijmegen Medical Center > Donders Institute for Brain, Cognition and Behaviour > PO Box 9101 > 6500 HB Nijmegen > The Netherlands > phone: +31-24-3665094 (UMCN) > fax: +31-24-3541122 (UMCN) > Email: [log in to unmask] > > > -----Oorspronkelijk bericht----- > Van: FSL - FMRIB's Software Library [mailto:[log in to unmask]] Namens Stamatios Sotiropoulos > Verzonden: vrijdag 18 februari 2011 14:22 > Aan: [log in to unmask] > Onderwerp: Re: [FSL] Black FA map dtifit > > Hi, > > Could you please check if your brain masks are binary and whether the bvecs/bvals entries correspond to the appropriate volumes in your data file (i.e. a b=0 entry corresponds to a non-DW volume)? > > Cheers, > Stam > > > On 18 Feb 2011, at 13:02, Catherine Delnooz wrote: > >> Dear all, >> >> I'm trying to run dtifit on my data. In about 25% of the subjects I get black .nii outputs from dtifit. The size is about 3kb instead of the 700kb in the good subjects. >> I can't find any differences in bvecs/bvals files. A bedpostx_datacheck shows no differences between good and bad results neither. >> Does somebody has a clue?? >> >> Best regards, >> Catherine >> > > > > Het UMC St Radboud staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. > The Radboud University Nijmegen Medical Centre is listed in the Commercial Register of the Chamber of Commerce under file number 41055629. >