[MINC-users] Z-axis flipping or rotation

[D. Louis Collins]

rotation by 180 degrees might be good, but again might not - this may  
change left/right in the image.  If the data is pointing down, and left  
is on left, then you'lll need to mirror the image with a negative scale  
factor on y:

	param2xfm -scale 1 -1 1 flip.xfm

again, you'll have to experiment with the mincresample to get the data  
in the right place.

-Louis

On Mar 23, 2006, at 1:31 PM, Jason Lerch wrote:

> I think the combination of param2xfm and mincresample is actually what
> you want. Run something like the following:
>
> param2xfm -rotation 0 0 180 rotation.xfm
> mincresample -tfm_input_sampling file.mnc -transform rotation.xfm  
> output.mnc
>
> You'll have to experiment with getting the right rotations for your  
> case.
>
> Jason
>
> tpb1 at ualberta.ca wrote:
>
>> I have a brain that is upside down and I need to orient it properly.   
>> I
>> looked in conglomerate and minctools, and it looks like mincreshape
>> should do the trick, but when I try:
>> mincreshape +zdirection p3.mnc p3_zflip.mnc, the following prints out:
>> Copying
>> chunks:............................................................... 
>> ..
>> ...............................................................Done.
>>
>> But the output file is not changed at all.  What am I doing wrong?
>>
>> Thanks,
>> Thomas
>>
>> _______________________________________________
>> MINC-users at bic.mni.mcgill.ca
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>>
>>
>
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