I am new to working with CellProfiler. I am using WormToolbox to analyze brightfield, GFP, and mCherry images. Right now I have to acquire my images using a Zeiss D510 LSC running Zen. However, that means the images are one LSM file with all 3 channels in it. I am using ImageJ to split the color channels and save them as separate tiff files for analysis by CellProfiler. Is there any way CellProfiler can do this automatically? I am going to have hundreds of images eventually, so doing the conversion manually will become onerous.
Thank you for a fun and exciting program!