Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software.
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There is a strong and growing need in the biology research community for accurate, automated image analysis. Here, we describe CellProfiler 2.0, which has been engineered to meet the needs of its growing user base. It is more robust and user friendly, with new algorithms and features to facilitate high-throughput work. ImageJ plugins can now be run within a CellProfiler pipeline. CellProfiler 2.0 is free and open source, available at under the GPL v. 2 license. It is available as a packaged application for Macintosh OS X and Microsoft Windows and can be compiled for Linux. Supplementary data are available at Bioinformatics online.

MeSH terms

High-Throughput Screening Assays
Image Processing, Computer-Assisted


Kamentsky, Lee
Jones, Thouis R
Fraser, Adam
Bray, Mark-Anthony
Logan, David J
Madden, Katherine L
Ljosa, Vebjorn
Rueden, Curtis
Eliceiri, Kevin W
Carpenter, Anne E

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