We’re new to CellProfiler, and we’re trying to measure lesion area in an infected leaf. However, we are running into problems trying to set up the pipeline. We have the software set to detect the area of the leaf on a white background, and compare it to the sum of lesion areas to find a percentage of the infection on the leaf. The first part of differentiating the leaf from the white background works fine, but we’re having trouble setting up the “UnmixColors” to filter out the healthy leaf part to measure only the lesion areas. We’re hoping to use custom stains to differentiate the infections, and we’ve tried using an image of a healthy leaf as the absorbance, but it only worked on a few images. Then we tried setting two stains in the module, giving it a ‘range’, but it is also filtering out more than what’s intended. Also, we can’t use ‘ClassifyPixels’ as the tutorials are, due to our computer being 32-bit.
We would greatly appreciate any advice and hint you may be able to give us to set this system up.