so you convert from dicom to nifti, then view in freeview and you think
that the anatomical orientations are incorrect? That should definitely not
be the case
On Tue, 14 Jun 2016, Marja
Caverlé wrote:
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
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