rcellminer
Computational Tool
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General Information
DescriptionExploring molecular profiles and drug response of the NCI-60 cell lines in R
Homepagehttp://www.bioconductor.org/packages/rcellminer
Publications
rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R
Augustin Luna; Vinodh N. Rajapakse; Fabricio G. Sousa; Jianjiong Gao; Nikolaus Schultz; Sudhir Varma; William Reinhold; Chris Sander; Yves Pommier
Purpose: The rcellminer R package provides a wide range of functionality to help R users access and explore molecular profiling and drug response data for the NCI-60. The package enables flexible programmatic access to CellMiner’s unparalleled breadth of NCI-60 data, including gene and protein expression, copy number, whole exome mutations, as well as activity data for ∼21K compounds, with information on their structure, mechanism of action and repeat screens. Functions are available to easily visualize compound structures, activity patterns and molecular feature profiles. Additionally, embedded R Shiny applications allow interactive data exploration.
Availability and implementation: rcellminer is compatible with R 3.2 and above on Windows, Mac OS X and Linux. The package, documentation, tutorials and Shiny-based applications are available through Bioconductor ( http://www.bioconductor.org/packages/rcellminer ); ongoing updates will occur according to the Bioconductor release schedule with new CellMiner data. The package is free and open-source (LGPL 3).
Contact: lunaa@cbio.mskcc.org or vinodh.rajapakse@nih.gov
DOI: https://doi.org/10.1093/bioinformatics/btv701
Metrics:
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