Hi, I have a workflow (attached) that is analysing mitochondria in images from a PE operetta.
I believe they are 12 bit in a 16 bit file, so I apply a rescale intensity first with the recommended settings for 12bit.
The problem I have is with the overlay outlines step. I try to do this on a falsecolor image generated from the two input channels after the rescale intensity step. The falsecolor image seems fine in the graytocolor module (mito in red & nuclei in blue):
but when I use it as a color background for the overlays, and save in png or tiff etc, I only see the red channel, and its dim:
What am I missing ??
Thanks again for this great tool & forum!
YR_070909_binary-4.cp (26.4 KB)