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Bioconductor - PharmacoGx

PharmacoGx

This is the released version of PharmacoGx; for the devel version, see PharmacoGx.

Analysis of Large-Scale Pharmacogenomic Data

Bioconductor version: Release (3.21)

Contains a set of functions to perform large-scale analysis of pharmaco-genomic data. These include the PharmacoSet object for storing the results of pharmacogenomic experiments, as well as a number of functions for computing common summaries of drug-dose response and correlating them with the molecular features in a cancer cell-line.

Author: Petr Smirnov [aut], Christopher Eeles [aut], Jermiah Joseph [aut], Zhaleh Safikhani [aut], Mark Freeman [aut], Feifei Li [aut], Benjamin Haibe-Kains [aut, cre]

Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains at utoronto.ca>

Citation (from within R, enter citation("PharmacoGx")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("PharmacoGx")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("PharmacoGx")
Creating a PharmacoSet Object HTML R Script Detecting Drug Synergy and Antagonism with PharmacoGx 3.0+ HTML R Script PharmacoGx: An R Package for Analysis of Large Pharmacogenomic Datasets HTML R Script Reference Manual PDF NEWS Text Details biocViews Classification, GeneExpression, Pharmacogenetics, Pharmacogenomics, Software Version 3.12.2 In Bioconductor since BioC 3.4 (R-3.3) (8.5 years) License GPL (>= 3) Depends R (>= 4.1.0), CoreGx Imports BiocGenerics, Biobase, S4Vectors, SummarizedExperiment, MultiAssayExperiment, BiocParallel, ggplot2, RColorBrewer, magicaxis, parallel, caTools, methods, downloader, stats, utils, graphics, grDevices, reshape2, jsonlite, data.table, checkmate, boot, coop System Requirements URL Bug Reports https://github.com/bhklab/PharmacoGx/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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