cmapR
This is the development version of cmapR; for the stable release version, see cmapR.
CMap Tools in R
Bioconductor version: Development (3.21)
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.
Author: Ted Natoli [aut, cre] (ORCID:
Maintainer: Ted Natoli <ted.e.natoli at gmail.com>
citation("cmapR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | 1.19.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4.5 years) |
| License | file LICENSE |
| Depends | R (>= 4.0) |
| Imports | methods, rhdf5, data.table, flowCore, SummarizedExperiment, matrixStats |
| System Requirements | |
| URL | https://github.com/cmap/cmapR |
| Bug Reports | https://github.com/cmap/cmapR/issues |
See More
| Suggests | knitr, testthat, BiocStyle, rmarkdown |
| 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_1.19.0.tar.gz |
| Windows Binary (x86_64) | cmapR_1.19.0.zip (64-bit only) |
| macOS Binary (x86_64) | cmapR_1.19.0.tgz |
| macOS Binary (arm64) | |
| 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 |