Hi Bruce, I converted the images with MRIconvert, then I swapped them in FSL with swapdim. I checked the images by opening the original dicoms and the converted niftis, and then visually compared them (since the heads are not very symmetrical that was not too hard).
Best, Marja On Tue, Jun 14, 2016 at 12:35 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Marja > > how did you swap them? And more importantly, how did you check that the > orientations were correct after conversion? > > cheers > Bruce > > > > On Mon, 13 Jun 2016, Marja Caverlé wrote: > > Hi guys, >> >> Just a quick question; I have converted my original DICOMs into niftis. >> After the conversion I manually checked whether the orientations were >> still >> the same, and they were not, so I swapped them. After this I did a recon >> -all. >> A lot of my results are at one side while I expected them in the other >> hemisphere. Is there any chance that the recon -all swapped left and >> right? >> How to check for this? I just want to be sure that I am really talking >> about >> the right hemisphere. >> >> Thanks! >> >> Best, >> >> Marja >> >> > _______________________________________________ > 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. > >
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