Thank you Anastasia. Best wishes, Barbara
On 21/11/2014 21:45, Anastasia Yendiki wrote: > Hi Barbara - It's converting to LAS orientation. If it the images are > already in LAS orientation, that command will have no effect, as you say. > > a.y > > On Fri, 17 Oct 2014, Barbara Kreilkamp wrote: > >> Dear all, >> >> Would you please explain why TRACULA is flipping the data so often? And >> what does the flip4fsl command do? The data I have is already in the >> right (radiological) orientation. fslswapdim does not seem to have an >> effect either, as the parameters are just set to 'x y z'. >> Are these commands only effective if the data is not in radiological >> convention? >> >> Thank you, >> Barbara >> >> flip4fsl >> /Users/NEURO-220/Desktop/Neuroimaging/KREILKAMP/Freesurfer_test_data_results/Bonn/bsplineT2bet_all_controls_patients/c3826/dmri/dwi_orig.nii.gz/Users/NEURO-220/Desktop/Neuroimaging/KREILKAMP/Freesurfer_test_data_results/Bonn/bsplineT2bet_all_controls_patients/c3826/dmri/dwi_orig_flip.nii.gz >> INFO: input image orientation is LAS >> INFO: input image determinant is -5.02198 >> fslswapdim >> /Users/NEURO-220/Desktop/Neuroimaging/KREILKAMP/Freesurfer_test_data_results/Bonn/bsplineT2bet_all_controls_patients/c3826/dmri/dwi_orig.nii.gz >> x y z >> /Users/NEURO-220/Desktop/Neuroimaging/KREILKAMP/Freesurfer_test_data_results/Bonn/bsplineT2bet_all_controls_patients/c3826/dmri/dwi_orig_flip.nii.gz >> fslorient -forceradiological >> /Users/NEURO-220/Desktop/Neuroimaging/KREILKAMP/Freesurfer_test_data_results/Bonn/bsplineT2bet_all_controls_patients/c3826/dmri/dwi_orig_flip.nii.gz >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it is > addressed. If you believe this e-mail was sent to you in error and the e-mail > contains patient information, please contact the Partners Compliance HelpLine > at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
