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chipenrich.data

Companion package to chipenrich

Bioconductor version: Release (3.17)

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: Kai Wang <wangdaha at umich.edu>

Citation (from within R, enter citation("chipenrich.data")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("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")
chipenrich.data HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews ChIPSeq, Epigenetics, ExperimentData, FunctionalGenomics, GeneSetEnrichment, HistoneModification, Regression
Version 2.24.0
License GPL-3
Depends R (>= 3.5.0)
Imports AnnotationDbi, BiocGenerics, methods, GenomicRanges, GenomeInfoDb, IRanges, readr, rtracklayer, S4Vectors, utils
Linking To
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
System Requirements
Enhances
URL
See More
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_2.24.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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