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skewed Z-axis on stacks

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skewed Z-axis on stacks

Randy Polson
7 posts
Hi-

I have a collection of images that I load as a stack.  Everything works well.  My difficulty is that in the real space of the images the Z-axis is not perpendicular to the XY plane.  Pixel 1,1 on slice 2 does not lie directly below pixel 1,1 on slice 1.  

Is there a way to tell ImageJ that the Z-axis is at an angle so that orthogonal views and resliced images come out to match the real space volumes?

thanks in advance,
Randy