High-throughput screening

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GiovanniCardone's picture

imageHTS

imageHTS is an R/Bioconductor package dedicated to the analysis of high-throughput microscopy-based screens. The package provides a modular and extensible framework to segment cells, extract quantitative cell features, predict cell types and browse screen data through web interfaces. Designed to operate in distributed environments, imageHTS provides a standardized access to remote data and facilitates the dissemination of high-throughput microscopy-based datasets.

dscho's picture

EBImage

EBImage is an open source image processing and analysis package for the statistical programming language R. Its primary goal is to enable automated analysis of large sets of images such as those obtained in high-throughput screening. An extensive range of basic image processing and feature extraction methods are provided. EBImage is available through the Bioconductor software project (www.bioconductor.org).

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dscho's picture

CellProfiler

CellProfiler is designed to enable biologists without training in computer vision or programming to quantitatively measure cell or whole-organism phenotypes from thousands of images automatically. The researcher creates an analysis pipeline from modules that find cells and cell compartments, measure features of those cells to form a rich, quantitative dataset that characterizes the imaged site in all of its heterogeneity.

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