recipe bioconductor-pharmacogx

Analysis of Large-Scale Pharmacogenomic Data



GPL (>= 3)



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.

package bioconductor-pharmacogx

(downloads) docker_bioconductor-pharmacogx



depends bioconductor-biobase:


depends bioconductor-biobase:


depends bioconductor-biocgenerics:


depends bioconductor-biocgenerics:


depends bioconductor-biocparallel:


depends bioconductor-biocparallel:


depends bioconductor-coregx:


depends bioconductor-coregx:


depends bioconductor-multiassayexperiment:


depends bioconductor-multiassayexperiment:


depends bioconductor-s4vectors:


depends bioconductor-s4vectors:


depends bioconductor-summarizedexperiment:


depends bioconductor-summarizedexperiment:


depends libblas:


depends libgcc-ng:


depends liblapack:


depends libstdcxx-ng:


depends r-base:


depends r-boot:

depends r-catools:

depends r-checkmate:

depends r-coop:

depends r-data.table:

depends r-downloader:

depends r-ggplot2:

depends r-jsonlite:

depends r-magicaxis:

depends r-rcolorbrewer:

depends r-rcpp:

depends r-reshape2:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-pharmacogx

and update with::

   mamba update bioconductor-pharmacogx

To create a new environment, run:

mamba create --name myenvname bioconductor-pharmacogx

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bioconductor-pharmacogx/tags`_ for valid values for ``<tag>``)

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