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Thanks Stamatios, The one 4D diffusion-weighted volume that needs to be reoriented, needs be virtually flipped over the x-axis. I used s11.nii.gz x y -z s11.nii On Mon, Jan 27, 2014 at 5:10 AM, Stamatios Sotiropoulos < [log in to unmask]> wrote: > Hi Charlie > > You can use fslswapdim to reorient the data and reverse a certain axis. > You then need to swap the sign in the respective coordinate of the bvecs > vectors. An easy way to double check things have worked out correctly is to > run dtifit, have a look at dti_V1 through fslview and make sure that the > fibre orientations (e.g. in the corpus callosum) make sense within all > planes. > > Cheers > Stam > > > On 26 Jan 2014, at 18:03, charlie Leger <[log in to unmask]> wrote: > > > Preprocessing for a TBSS asymmetries test revealed one participant's > diffusion data has a different orientation (reversed). I assume that, > unlike anatomical T1 scans, diffusion-weighted data can't be corrected at > the outset (e.g. dcm2nii -r y file.nii) because the diffusion > directional information would not change in tandem with the newly > reoriented image, which would disrupt directional information (e.g. FA). Is > this correct or can this participants diffusion data set reoriented to be > consistent with the other diffusion-weighted data sets. > > > > Any feedback would be greatly appreciated. > > > > Charlie >