you can try playing with the --reorder flag in mri_convert
On 04/05/2017 10:11 AM, Jeffrey Crawford wrote: > > Hello everyone! > > I have two types of scans of the same participant. One was an Axial > scan (Image 1) and the other is a Cortical Scan (Image 2), both with > the same dimensions (256 by 256 by 124). As you can see, the > orientation of the axial scan has the coronal in the top left, the > sagittal in the top right, and the axial below. The coronal scan has > the axial in the top left, the sagittal in the top right (in an odd > orientation) and the cortical on the bottom. > > Is it possible in Freesurfer to convert the cortical scan, so that it > presents itself in the same order and orientation as the axial scan? > > I realize that this would mean that the converted cortical scan would > have different dimensions, but I think that is just fine for my purposes. > > I would much appreciate any and all opinions, > > Jeff > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
