depmap: depmap: Cancer Dependency Map Data Package
In UCLouvain-CBIO/depmap: Cancer Dependency Map Data Package

depmap

R Documentation

depmap: Cancer Dependency Map Data Package

Description

The depmap package is a data package that accesses datsets from the Broad Institute DepMap cancer dependency study using ExperimentHub. Datasets from the most current release are available, including RNAI and CRISPR-Cas9 gene knockout screens quantifying the genetic dependency for select cancer cell lines. Additional datasets are also available pertaining to the log copy number of genes for select cell lines, protein expression of cell lines as measured by reverse phase protein lysate microarray (RPPA), 'Transcript Per Million' (TPM) data, chemical dependecy (drug_sensativity), mass spectrometry proteomic quantification (proteomic) as well as supplementary datasets which contain metadata and mutation calls for the other datasets found in the current release. This package will be updated on a quarterly basis to incorporate the latest Broad Institute DepMap Public cancer dependency datasets. All data made available in this package was generated by the Broad Institute DepMap for research purposes and not intended for clinical use. This data is distributed under the Creative Commons license (Attribution 4.0 International (CC BY 4.0)).