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Bioinformatics DOI:10.1093/bioinformatics/btw390

CellProfiler Analyst: interactive data exploration, analysis and classification of large biological image sets.

Publication TypeJournal Article
Year of Publication2016
AuthorsDao, D, Fraser, AN, Hung, J, Ljosa, V, Singh, S, Carpenter, AE
Date Published2016 Jun 26

CellProfiler Analyst allows the exploration and visualization of image-based data, together with the classification of complex biological phenotypes, via an interactive user interface designed for biologists and data scientists. CellProfiler Analyst 2.0, completely rewritten in Python, builds on these features and adds enhanced supervised machine learning capabilities (Classifier), as well as visualization tools to overview an experiment (Plate Viewer and Image Gallery).

AVAILABILITY AND IMPLEMENTATION: CellProfiler Analyst 2.0 is free and open source, available at and from GitHub ( under the BSD license. It is available as a packaged application for Mac OS X and Microsoft Windows and can be compiled for Linux. We implemented an automatic build process that supports nightly updates and regular release cycles for the software.

CONTACT: anne@broadinstitute.orgSupplementary information: Supplementary data are available at Bioinformatics online.


Alternate JournalBioinformatics
PubMed ID27354701