ccmap

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.22 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see ccmap.

Combination Connectivity Mapping

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DOI: 10.18129/B9.bioc.ccmap

Bioconductor version: Release (3.22)

Finds drugs and drug combinations that are predicted to reverse or mimic gene expression signatures. These drugs might reverse diseases or mimic healthy lifestyles.

Author: Alex Pickering

Maintainer: Alex Pickering <alexvpickering at gmail.com>

Citation (from within R, enter citation("ccmap")):

Installation

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


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

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

Documentation

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews DifferentialExpression, GeneExpression, Microarray, Software, Transcription

Version 1.36.0

In Bioconductor since BioC 3.4 (R-3.3) (9 years)

License MIT + file LICENSE

Depends

Imports AnnotationDbi(>= 1.36.2), BiocManager (>= 1.30.4), ccdata(>= 1.1.2), doParallel (>= 1.0.10), data.table (>= 1.10.4), foreach (>= 1.4.3), parallel (>= 3.3.3), xgboost (>= 0.6.4), lsa (>= 0.73.1)

System Requirements

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Suggests crossmeta, knitr, rmarkdown, testthat, lydata

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Package Archives

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

Source Package

Windows Binary (x86_64)

macOS Binary (x86_64)

macOS Binary (arm64)

Source Repository git clone https://git.bioconductor.org/packages/ccmap

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ccmap

Package Short Url https://bioconductor.org/packages/ccmap/

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