Well the DICOMs I visualized in osiriX, and the niftis in both freesurfer and fsl. And there they seemed to match. So my question is; is there a possibility that dimensions are swapped during the recon -all? If not, then I am sure R=R and L=L.
Thanks! On Tue, Jun 14, 2016 at 12:55 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Marja > > what did you visualize it in? I would suggest freeview > > cheers > Bruce > > On Tue, 14 Jun 2016, Marja Caverlé wrote: > > 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. >> >> >> >> > _______________________________________________ > 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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