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Hi Andy, I'm not sure what you want here, or precisely what "single-voxel data" is. You can represent any arbitrary ROI using a mask image and that's what I would recommend. The difficulty is knowing how the axes of the two images relate to each other. Have your images been converted to nifti, and if so, do they contain valid qform information (use fslhd and see if the qform_code is non-zero). If so then we can probably do this using the qform information. If not, you'll have to figure out some way of relating the images together. If this isn't quite what you were after, then please send us a more detailed description of your situation. All the best, Mark On 21 Mar 2008, at 17:35, Andy Prescot wrote: > Hi, > > I need to tissue-segment triple-obliqued single-voxel data that > were planned > using non-obliqued T1w images (Varian Unity/INOVA data). > > For non-obliqued single-voxel data I perform a BET, FAST, fslroi to > extract > the 'segmanted' voxel, and obtain the tissue contributions from the > resulting histogram. Is there a way to extract arbitrarily shaped/ > obliqued > segmented roi's using FSL? Maybe there is a way to oblique the > orthogonal > ax/cor/sag planning images to match the three single-voxel > rotations and > then segment using my standard method?? > > Many thanks in advance for any assistance. > Andy >