CellProfiler is used for batch processing large image datasets. It makes use of ‘visual programming’ creating pipelines, there is limited command line scripting
Useful for processing larger datasets, e.g. miniscreens, identically
Software specialising in segmentation and analysis of objects (e.g. cells and nuclei) within images and image stacks.
Can be used for tracking, counting, nuclear to cytoplasmic shuttling and more.
Can’t be used for 3D imaging.