TY - JOUR T1 - CellProfiler Analyst: interactive data exploration, analysis, and classification of large biological image sets JF - bioRxiv DO - 10.1101/057976 SP - 057976 AU - D. Dao AU - A. N. Fraser AU - J. Hung AU - V. Ljosa AU - S. Singh AU - A. E. Carpenter Y1 - 2016/01/01 UR - http://biorxiv.org/content/early/2016/06/09/057976.abstract N2 - Summary 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 (in Classifier), as well as visualization tools to overview an experiment (Plate Viewer and Image Gallery).Availability CellProfiler Analyst 2.0 is free and open source, available at http://www.cellprofiler.org/releases and from GitHub (https://github.com/CellProfiler/CellProfiler-Analyst) 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{at}broadinstitute.orgSupplementary information Supplementary Text 1: Manual to CellProfiler Analyst; updated versions are available at CellProfiler.org/CPASupplementary Data 1: Benchmarking performance of classifiers in CPA 2.0 versus CPA 1.0 ER -