How to merge two 3D label images ?

1

I have two sources for labels on the same scan.

img1 contains labels [0, 1, 4] and img2 contains labels [0, 2, 3].

Those two images are coregistered, and I’d like to transfer the labels from img2 to img1.

So I have one 3D image with all the labels [0, 1, 2, 3, 4]

I couldn’t figure it out, please advise me !

Thanks!

2

Hello,

Are the labels overlapping? If not the two images could simply be added together. If they do overlay, the labels could simply be merged with a min or max image filter.

1 Like
3

This is a good answer,

How about if I want to have a preferential order in case of a conflict ?

Let’s say, 4 > 2 > 3 > 1 or anything like that. Meaning, If a label overlap I would choose according to that order.

Thank you very much

4

The MaximumImageFilter would do this.

5

If you need anything more fancy than minimum or maximum operator then you can get the volumes as numpy arrays and combine them using any Python function.