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cellprofiler

An open-source application for biological image analysis

cellprofiler-analyst

Open-source software for exploring and analyzing large, high-dimensional image-derived data.

cellprofiler-plugins

Community-contributed and experimental CellProfiler modules.

centrosome

An open source image processing library

core

distributed-cellprofiler

Run encapsulated docker containers with CellProfiler in the Amazon Web Services infrastructure.

distribution

Everything needed to build CellProfiler for your favorite environment.

imageio

Python library for reading and writing image data

imagej-macros

Assorted macros for ImageJ

imquick

A lightweight scientific image viewer

misc-r-scripts

R scripts generated for assorted projects

ngff-converter

NGFF-Converter is a GUI application for conversion of bioimage formats into OME-NGFF (Next-Generation File Format) or OME-TIFF

omero-metadata

OMERO plugin for metadata manipulation https://www.openmicroscopy.org/omero/

omero-reader

Pure Python implementation of python-bioformats reader API using OMERO

omero-web

Django-based OMERO.web client

openmicroscopy

profiling-resistance-mechanisms

Predicting pharmacodynamic responses to cancer drugs using cell morphology

python-bioformats

Read and write life sciences file formats

python-javabridge

Python wrapper for the Java Native Interface

quantifish

Zebrafish embryo fluorescence quantification

spotmeasure

Quantitation of migration of fluorescent spots into regions of interest.

tbanalyser

Run TB diagnostic tests on Nanostring data

tifffile

Read and write TIFF files. Forked from https://pypi.org/project/tifffile

tutorials

CellProfiler tutorial pipelines and images

zf-dissem-tools

Short scripts for investigating dissemination of mycobacteria within zebrafish, using output files from QuantiFish.