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CellProfiler Video Tutorials Visit our YouTube playlist for video tutorials on CellProfiler, CellProfiler Analyst, segmentation strategies, how to construct pipelines, and much more. CellProfiler Written Tutorials Technical descriptions of CellProfiler and CellProfiler Analyst software can be found...

Note: CellProfiler versions 2.2 and 3.0 require installation of a Java 8 JDK CellProfiler 4 4.2.7 macOS (10.15+) Windows (64-bit) 4.2.6 macOS (10.15+) Windows (64-bit) 4.2.5 macOS (10.15+) Windows (64-bit) 4.2.4 macOS (10.15+) Windows (64-bit) 4.2.1 macOS (10.14+) Windows (64-bit) 4.1.3 macOS (10.14...

Update September 2024: CellProfiler 4.2.8. release New release for MacOS (Intel and ARM) 13+ is available here New release for Windows 10 and 11 is available here. After June 28th, 2023, if you try to download CellProfiler from a very old browser, you might not be able to due to updated AWS security...

CellProfiler enables reproducible research because a saved pipeline includes all the modules and settings. Here, we provide links to pipelines used in some published studies, as well as the version of CellProfiler used to create them. You can instead download the most current version of CellProfiler...

CellProfiler is free, open-source software for quantitative analysis of biological images. No prior experience in programming or computer vision is required – this page is intended to help you get up and running. The quickest way to get up and running with CellProfiler is to: Download CellProfiler...

Previous Examples Previous examples (prior to 4.0) can be found on the previous examples page, but we discourage their use because they are now outdated.

Software for analyzing CellProfiler-produced data Software Description Interface CellProfiler In addition to performing image analysis to generate measurements, CellProfiler has built-in tools in the Data Tools menu to generate a few types of plots. CellProfiler output files in MATLAB (.mat) and...

You can see talks and read articles about CellProfiler and the group at the Carpenter Lab website [ here]. Anne Carpenter’s public talks ( PDFs of slides)

Version Manual CellProfiler 4.2.8 [ HTML] 4.2.7 [ HTML] 4.2.6 [ HTML] 4.2.5 [ HTML] 4.2.4 [ HTML] 4.2.1 [ HTML] 4.2.0 [ HTML ] 4.1.3 [ HTML ] 4.0.7 [ HTML] 3.1.9 [ HTML ] 3.1.8 [ HTML ] 3.1.5 [ HTML ] 3.0 [ HTML ] 2.1 and 2.2 [ HTML ] 2.0 [ PDF ] 1.0 [ PDF ]