CellProfiler plugins -- an easy image analysis platform integration for containers and Python tools
Abstract
CellProfiler is a widely used software for creating reproducible, reusable image analysis workflows without needing to code. In addition to the >90 modules that make up the main CellProfiler program, CellProfiler has a plugins system that allows for the creation of new modules which integrate with other Python tools or tools that are packaged in software containers. The CellProfiler-plugins repository contains a number of these CellProfiler modules, especially modules that are experimental and/or dependency-heavy. Here, we present an upgraded CellProfiler-plugins repository, an example of accessing containerized tools, improved documentation, and added citation/reference tools to facilitate the use and contribution of the community.
Cite
@article{arxiv.2306.01915,
title = {CellProfiler plugins -- an easy image analysis platform integration for containers and Python tools},
author = {Erin Weisbart and Callum Tromans-Coia and Barbara Diaz-Rohrer and David R Stirling and Fernanda Garcia-Fossa and Rebecca A Senft and Mark C Hiner and Marcelo B de Jesus and Kevin W Eliceiri and Beth A Cimini},
journal= {arXiv preprint arXiv:2306.01915},
year = {2024}
}
Comments
17 pages, 2 figures, 1 table