Responses to CytoMap There and back again thread

Yep, I suspect it would be easiest to use the built in “Distance to annotations” function in QuPath to directly add that measurement to each cell, prior to importing into CytoMAP.

I have updated the Colormap script above to “V2” which now only has one input, the file name of the TSV you want to use. If the file name is not in the correct location, either due to the name or the path being wrong, it should throw an error.
It should also print out the location it tried to open and failed, to help with troubleshooting.

1 Like

In case anyone here is still using the old script, I also wanted to mention in the split thread that the import code was updated to make it dramatically faster for large numbers of cells!

1 Like