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Hi On 1 Sep 2010, at 19:25, Lorena Jimenez-Castro wrote: > Hello FSL experts, > > I would greatly appreciate any hint on the following questions ☺ > > 1) I did an analysis using Melodic temporal Concatenation, following by randomise using tfce, now for presentation purpose I would like to overlay the xxxxxx_ tfce_corrp_tstat.nii maps on a standard MNI image (MNI152_T1_2mm_brain.nii.gz). How can I do that??? First upsample your stats maps to 1 or 2mm resolution using (e.g.) ApplyXFM Either in FSLView (and then use screenshots) or with "overlay" followed by "slices". > in case you need it: > I did the registration using Flirt and Fnirt, the standard image that I used was MNI152_T1_2mm_brain.nii.gz and I used 4mm for resampling resolution. > The tfce_corrp_tstat maps have: > Image Dimensions (X, Y, Z): 45 x 54 x 45 > Voxel Dimensions (X, Y, Z): 4 x 4 x 4 > > > 2) I created some ROIs (masks) using the provided structure maps (in atlas tool) in FSLview, because I want to extract only some regions from the xxxxxx_tfce_corrp_tstat maps. > The question is, how do I need to do the registration to transform that ROI (mask) into the space of my tfce_corrp_tstat maps?. In my case, what are the specific sequence of command that I need to apply in order to do that? Again - resample either the stats maps or the ROIs so that they have the same dimensions > 3) If I want to show a rendered map composed by the mask (region affected) overlaid on the MNI152_T1_2mm_brain.nii image. How to show that affected region displaying a red to yellow overlay (red to yellow colors defining increases in the corrected p values) Easiest in FSLView - see the manual. Cheers. > > > Thank you so much in advance > > Lorena Jimenez, MD. > --------------------------------------------------------------------------- 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 ---------------------------------------------------------------------------