compEpiTools

This is the released version of compEpiTools; for the devel version, see compEpiTools.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0

Tools for computational epigenomics

Bioconductor version: Release (3.23)

Tools for computational epigenomics developed for the analysis, integration and simultaneous visualization of various (epi)genomics data types across multiple genomic regions in multiple samples.

Author: Mattia Pelizzola [aut], Kamal Kishore [aut], Mattia Furlan [ctb, cre]

Maintainer: Mattia Furlan <mattia.furlan at iit.it>

Citation (from within R, enter citation("compEpiTools")):

Mattia Pelizzola, Kamal Kishore. compEpiTools: Tools for computational epigenomics. doi:10.18129/B9.bioc.compEpiTools, R package version 1.46.0, https://bioconductor.org/packages/compEpiTools.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("compEpiTools")

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("compEpiTools")

compEpiTools.pdf	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Coverage, GeneExpression, GenomeAnnotation, Sequencing, Software, Visualization
Version	1.46.0
In Bioconductor since	BioC 3.0 (R-3.1) (12 years)
License	GPL
Depends	R (>= 3.5.0), methods, topGO, GenomicRanges
Imports	AnnotationDbi, BiocGenerics, Biostrings, Rsamtools, parallel, grDevices, gplots, IRanges, GenomicFeatures, XVector, methylPipe, GO.db, S4Vectors, Seqinfo
System Requirements
URL

Suggests	BSgenome.Mmusculus.UCSC.mm9, TxDb.Mmusculus.UCSC.mm9.knownGene, org.Mm.eg.db, knitr, rtracklayer
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	compEpiTools_1.46.0.tar.gz
Windows Binary (x86_64)	compEpiTools_1.46.0.zip
macOS Binary (big-sur-x86_64)	compEpiTools_1.46.0.tgz
macOS Binary (sonoma-arm64)	compEpiTools_1.46.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/compEpiTools
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/compEpiTools
Package Short Url	https://bioconductor.org/packages/compEpiTools/
Package Downloads Report	Download Stats