Free, open-source image analysis software from the Broad Institute for high-throughput cell image analysis.
CellProfiler is free, open-source image analysis software developed by the Broad Institute, aimed mainly at automated analysis of biomedical and cell images. It uses a visual pipeline approach and suits batch cell counting, fluorescence quantification, morphological measurement and high-throughput phenotyping.
Use cases: cell image analysis, batch microscopy image processing, fluorescence quantification, high-throughput phenotyping
Recommended combination: CellProfiler + ImageJ/Fiji + napari
