CellProfiler Pipeline 2.

This CellProfiler 3.1.9 pipeline uses the z-projection images from the pipeline in S1 Data and calculates the number of virions per cell that co-localize with the nucleus and with lysosomes. This data is exported as an Excel spreadsheet. Output images include RGB tiffs of the raw fluorescence (“Raw RGB”), of the processed images used for object identification (“RGB”), of the outlines of all of the identified objects (cells, nuclei, viruses, lysosomes; “Outlines”), and of the identified viruses with the raw and processed fluorescence of the green channel (“QCAdV”). (CPPROJ)