Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2011 Apr 15;27(8):1179-80.
doi: 10.1093/bioinformatics/btr095. Epub 2011 Feb 23.

Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software

Lee Kamentsky  1 , Thouis R Jones, Adam Fraser, Mark-Anthony Bray, David J Logan, Katherine L Madden, Vebjorn Ljosa, Curtis Rueden, Kevin W Eliceiri, Anne E Carpenter
Affiliations

Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software

Lee Kamentsky et al. Bioinformatics. .

Abstract

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.

Availability and implementation: CellProfiler 2.0 is free and open source, available at http://www.cellprofiler.org 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.

Contact: anne@broadinstitute.org

Supplementary information: Supplementary data are available at Bioinformatics online.

PubMed Disclaimer

Figures

Fig. 1.
Fig. 1.
User interface for CellProfiler 2.0.
See this image and copyright information in PMC

References

    1. Carpenter A.E., et al. CellProfiler: image analysis software for identifying and quantifying cell phenotypes. Genome Biol. 2006;7:R100. - PMC - PubMed
    1. Jaqaman K., et al. Robust single-particle tracking in live-cell time-lapse sequences. Nat. Methods. 2008;5:695–702. - PMC - PubMed
    1. Jones T.R., et al. Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning. Proc. Natl Acad. Sci. USA. 2009;106:1826–1831. - PMC - PubMed
    1. Knutsson H., Westin C.-F. Normalized and differential convolution: methods for interpolation and filtering of incomplete and uncertain data. Proc. IEEE Conf. Comput. Vis. Pattern Recognit. 1993:515–523.
    1. Lamprecht M.R., et al. CellProfiler: free, versatile software for automated biological image analysis. Biotechniques. 2007;42:71–75. - PubMed

Publication types

LinkOut - more resources