chipenrich.data

DOI: 10.18129/B9.bioc.chipenrich.data    

Companion package to chipenrich

Bioconductor version: Release (3.13)

Supporting data for the chipenrich package. Includes pre-defined gene sets, gene locus definitions, and mappability estimates.

Author: Ryan P. Welch [aut, cph], Chee Lee [aut], Raymond G. Cavalcante [aut], Kai Wang [cre], Laura J. Scott [ths], Maureen A. Sartor [ths]

Maintainer: Raymond G. Cavalcante <rcavalca at umich.edu>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("chipenrich.data")

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("chipenrich.data")

 

HTML	R Script	chipenrich.data
PDF		Reference Manual
Text		NEWS

Details

biocViews	ChIPSeq, Epigenetics, ExperimentData, FunctionalGenomics, GeneSetEnrichment, HistoneModification, Regression
Version	2.16.0
License	GPL-3
Depends	R (>= 3.5.0)
Imports	AnnotationDbi, BiocGenerics, methods, GenomicRanges, GenomeInfoDb, IRanges, readr, rtracklayer, S4Vectors, utils
LinkingTo
Suggests	BiocStyle, devtools, knitr, rmarkdown, roxygen2, testthat, GO.db, org.Dm.eg.db, org.Dr.eg.db, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, TxDb.Dmelanogaster.UCSC.dm3.ensGene, TxDb.Dmelanogaster.UCSC.dm6.ensGene, TxDb.Drerio.UCSC.danRer10.refGene, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Mmusculus.UCSC.mm9.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, TxDb.Rnorvegicus.UCSC.rn4.ensGene, TxDb.Rnorvegicus.UCSC.rn5.refGene, TxDb.Rnorvegicus.UCSC.rn6.refGene
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	chipenrich
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	chipenrich.data_2.16.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Source Repository	git clone https://git.bioconductor.org/packages/chipenrich.data
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/chipenrich.data
Package Short Url	https://bioconductor.org/packages/chipenrich.data/
Package Downloads Report	Download Stats