CellProfiler plugins -- an easy image analysis platform integration for containers and Python tools
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arXiv
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| Hauptverfasser: | , , , , , , , , , |
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| Format: | Preprint |
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2023
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| _version_ | 1866929225077882880 |
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| author | Weisbart, Erin Tromans-Coia, Callum Diaz-Rohrer, Barbara Stirling, David R Garcia-Fossa, Fernanda Senft, Rebecca A Hiner, Mark C de Jesus, Marcelo B Eliceiri, Kevin W Cimini, Beth A |
| author_facet | Weisbart, Erin Tromans-Coia, Callum Diaz-Rohrer, Barbara Stirling, David R Garcia-Fossa, Fernanda Senft, Rebecca A Hiner, Mark C de Jesus, Marcelo B Eliceiri, Kevin W Cimini, Beth A |
| contents | 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. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2306_01915 |
| institution | arXiv |
| publishDate | 2023 |
| record_format | arxiv |
| spellingShingle | CellProfiler plugins -- an easy image analysis platform integration for containers and Python tools Weisbart, Erin Tromans-Coia, Callum Diaz-Rohrer, Barbara Stirling, David R Garcia-Fossa, Fernanda Senft, Rebecca A Hiner, Mark C de Jesus, Marcelo B Eliceiri, Kevin W Cimini, Beth A Quantitative Methods 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. |
| title | CellProfiler plugins -- an easy image analysis platform integration for containers and Python tools |
| topic | Quantitative Methods |
| url | https://arxiv.org/abs/2306.01915 |