cmapR
This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see cmapR.
CMap Tools in R
Bioconductor version: 3.11
The Connectivity Map (CMap) is a massive resource of perturbational gene expression profiles built by researchers at the Broad Institute and funded by the NIH Library of Integrated Network-Based Cellular Signatures (LINCS) program. Please visit https://clue.io for more information. The cmapR package implements methods to parse, manipulate, and write common (CMap) data objects, such as annotated matrices and collections of gene sets.
Maintainer: Ted Natoli <ted.e.natoli at gmail.com>
citation("cmapR")
):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("cmapR")
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("cmapR")
cmapR Tutorial | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | DataImport, DataRepresentation, GeneExpression, Software |
Version | 1.0.0 |
In Bioconductor since | BioC 3.11 (R-4.0) (4 years) |
License | file LICENSE |
Depends | R (>= 3.5) |
Imports | methods, rhdf5, data.table, prada, SummarizedExperiment, matrixStats |
System Requirements | |
URL | https://github.com/cmap/cmapR |
Bug Reports | https://github.com/cmap/cmapR/issues |
See More
Suggests | knitr, testthat, BiocStyle |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | cmapR_1.0.0.tar.gz |
Windows Binary | cmapR_1.0.0.zip |
macOS 10.13 (High Sierra) | cmapR_1.0.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/cmapR |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/cmapR |
Bioc Package Browser | https://code.bioconductor.org/browse/cmapR/ |
Package Short Url | https://bioconductor.org/packages/cmapR/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.11 | Source Archive |