[slicer-users] how to change orientation

Steve Pieper pieper at bwh.harvard.edu
Tue Sep 7 09:49:17 EDT 2010


Hi Akiko -

I agree with Stuart, the problem probably was with the MedCon software.

As another option to fix it, you can put the volume in a transform and 
flip the axes by editing the diagonal elements.  Then you can 'harden' 
the transform and re-export the dicom files so they will be correct when 
loaded in slicer and other packages.  Be careful with the left-right 
flip since that can be difficult to verify by visual inspection for 
things like brain images.

-Steve

http://www.slicer.org/slicerWiki/index.php/Modules:Transforms-Documentation-3.6

http://www.slicer.org/slicerWiki/index.php/Modules:Data-Documentation-3.6

http://www.slicer.org/slicerWiki/index.php/Coordinate_systems



On Sep/7/10 9:29 AM, swallace at nmr.mgh.harvard.edu wrote:
> Looking at the documentation, that software ignored file orientation,
> hence the issue.
>
> Try Orient Images module:
>
> http://www.slicer.org/slicerWiki/index.php/Modules:OrientImages-Documentation-3.6
>
>
>
> Stuart
>
>> Dear 3Dslicer-users,
>>
>> I converted .ima format files to .dcm file through a software called
>> MedCon. I don't know whether it happened due to that or not,
>>
>> but orientations of saggital and coronal images  were somewhat upside
>> down.
>>
>> could you tell me how to fix it?
>>
>> thank you,
>>
>> akiko
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