intramacrophagic parasites counter
Automated image analysis protocol to count intracellular parasites. Parasites and Nuclei are segmented from the same DAPI channel.
Download README Download Script Download Script Download DataSetDetailed explanation
Functionality: segments nuclei, cells and parasites. Counts nr parasites per cell. To start load .cppipe file on CellProfiler pipeline window or .xeap file on Developer Toolbox. Input: fluorescent images (Nuclei-DAPI, Parasites-DAPI, Cells-Cy5). Main steps: segment nuclei, segment cells, segment parasites, mask parasites to cells, quantification. Outputs: Excel files with quantification + image segmentation outlines + image with nr parasites per cell. editable parameters: adjust for cell and parasites sizes; check segmentation thresholds
Authors
André Maia - IBMC - Instituto de Biologia Molecular e Celular,i3S - Instituto de Investigação e Inovação em Saúde
keywords
segmentation,nuclei,cells,particles,intracellular,cellprofiler,incell
Requirements
CellProfiler 3.0 or higher IN Cell Developer Toolbox 1.9 or higher