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chipenrich.data

This is the development version of chipenrich.data; for the stable release version, see chipenrich.data.

Companion package to chipenrich


Bioconductor version: Development (3.20)

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 "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 2.29.0
License GPL-3
Depends R (>= 3.5.0)
Imports AnnotationDbi, BiocGenerics, methods, GenomicRanges, GenomeInfoDb, IRanges, readr, rtracklayer, S4Vectors, utils
System Requirements
URL
See More
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
Linking To
Enhances
Depends On Me
Imports Me chipenrich
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package chipenrich.data_2.29.0.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