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PS: not 27 mL (!), much less than that... Still, 3 mm is quite a big voxel! 2013/6/10 Anderson M. Winkler <[log in to unmask]> > Hi Heidi, > > I suggest that you resample your data to 1 or 2mm, instead of the atlas. > It's much less error prone from you side, as you'd have just one set of > images to manipulate (yours), rather than two (yours and the atlas). Plus, > by resampling the atlas, you'd have to make sure that the 'atlasquery' > command locates and uses it correctly, and also deal yourself even with > minor issues as the fact that 182 and 218 (dimensions of the 1 mm atlas) > aren't divisible by 3. > > Save yourself the hassle and use your data with 2 or 1 mm resolution. And > if you could do it from the very beginning of the analysis, even better, as > each 3mm voxel has volume of 27 mL -- a very coarse resolution to conclude > anything. > > Finally, remember that the use of autoaq is just for a quick, overall > anatomic reference. You can still get the same information if you look at > your images side-by-side with the atlas, or follow an anatomy textbook. > > All the best, > > Anderson > > > > 2013/6/10 Jacobs H (NP) <[log in to unmask]> > > Dear Anderson, >> >> I have been using autoaq for my resting state analyses. Looking at the >> results in fslview, shows that the results are localized in posterior >> regions. >> However the autoaq command shows that the results are in the frontal >> areas. >> I think this difference stems from a difference in image dimensions. >> In melodic I resampeled everything into 3mm. The dimensions of my dual >> regression images are provided below. >> I created an atlas that fits these dimensions (with applying FLIRT on the >> Harvard Oxford atlas). >> Unfortunately, autoaq does not provide me the correct output. I am not >> sure which atlas it uses or whether I can tell it to use the one that I >> created. >> >> Any ideas how I can solve this? Should I warp my dual regression to fit >> the 1mm atlas? How can I do that? >> >> Thanks! >> Best >> Heidi >> >> sizeof_hdr 348 >> data_type FLOAT32 >> dim0 3 >> dim1 60 >> dim2 72 >> dim3 60 >> dim4 1 >> dim5 1 >> dim6 1 >> dim7 1 >> vox_units mm >> time_units s >> datatype 16 >> nbyper 4 >> bitpix 32 >> pixdim0 0.0000000000 >> pixdim1 3.0000000000 >> pixdim2 3.0000000000 >> pixdim3 3.0000000000 >> pixdim4 1.0000000000 >> pixdim5 0.0000000000 >> pixdim6 0.0000000000 >> pixdim7 0.0000000000 >> vox_offset 352 >> cal_max 0.0000 >> cal_min 0.0000 >> scl_slope 1.000000 >> scl_inter 0.000000 >> phase_dim 0 >> freq_dim 0 >> slice_dim 0 >> slice_name Unknown >> slice_code 0 >> slice_start 0 >> slice_end 0 >> slice_duration 0.000000 >> time_offset 0.000000 >> intent Unknown >> intent_code 0 >> intent_name >> intent_p1 0.000000 >> intent_p2 0.000000 >> intent_p3 0.000000 >> qform_name MNI_152 >> qform_code 4 >> qto_xyz:1 -3.000000 0.000000 -0.000000 90.000000 >> qto_xyz:2 0.000000 3.000000 -0.000000 -126.000000 >> qto_xyz:3 0.000000 0.000000 3.000000 -72.000000 >> qto_xyz:4 0.000000 0.000000 0.000000 1.000000 >> qform_xorient Right-to-Left >> qform_yorient Posterior-to-Anterior >> qform_zorient Inferior-to-Superior >> sform_name MNI_152 >> sform_code 4 >> sto_xyz:1 -3.000000 0.000000 0.000000 90.000000 >> sto_xyz:2 0.000000 3.000000 0.000000 -126.000000 >> sto_xyz:3 0.000000 0.000000 3.000000 -72.000000 >> sto_xyz:4 0.000000 0.000000 0.000000 1.000000 >> sform_xorient Right-to-Left >> sform_yorient Posterior-to-Anterior >> sform_zorient Inferior-to-Superior >> file_type NIFTI-1+ >> file_code 1 >> descrip FSL4.1 >> aux_file >> >> >> ================================================ >> Dr. Heidi Jacobs >> Postdoc researcher >> Faculty of Health, Medicine and Life Sciences >> School for Mental Health and Neurosciences >> Division Cognitive Neuropsychiatry and Clinical Neurosciences >> Alzheimer Center Limburg >> [log in to unmask] >> www.maastrichtuniversity.nl >> www.heidijacobs.nl >> >> Dr. Tanslaan 12, 6229 ET Maastricht >> P.O. Box 616, 6200 MD Maastricht, The Netherlands >> T +31 43 38 84 090 F +31 43 38 84 092 >> ================================================ > > >