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BMC Bioinformatics. 2008 Nov 15;9:482. doi: 10.1186/1471-2105-9-482.

CellProfiler Analyst: data exploration and analysis software for complex image-based screens.

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  • 1Imaging Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.



Image-based screens can produce hundreds of measured features for each of hundreds of millions of individual cells in a single experiment.


Here, we describe CellProfiler Analyst, open-source software for the interactive exploration and analysis of multidimensional data, particularly data from high-throughput, image-based experiments.


The system enables interactive data exploration for image-based screens and automated scoring of complex phenotypes that require combinations of multiple measured features per cell.

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