I am a new Cellprofiler user and I am trying to do analysis of % of fluorescent positive cells respect to total cells (nuclei staining). I got a pipeline from a labmate and it works very well except that in her case all the images are as tiff each channel in a different file. In my case both channels are in the same zvi file. So my question is: to run this analysis do I have to previously convert each image from zvi to 2 tiff files (one for each channel) or is there a way that cellprofiler can read this images directly?
Thank you very much!