Open Microscopy Environment

I have a collection of movies that have multiple channels and z-slices. Since the movies are somewhat old, I have a single tiff per czt with no other information than the pattern in the filename. I am trying to find a way to programmatically import the images into OMERO using OMEROpy and specify the czt indices at import.

Are there are any examples that show how to do this?

Hi Ivan,

I wonder if the "Combine_Images.py" script might be useful to you?
https://github.com/ome/scripts/blob/dev ... _Images.py

This is designed to be used post-import to stack a collection of single-plane images into a 5D multi-ZCT image. You can see a demo movie of this here: http://help.openmicroscopy.org/utility-scripts.html

I guess you could either use the script manually, or call it from Python via the script API, or just use the code to write your own functionality.

Hope that helps,

Will.