compEpiTools

DOI: 10.18129/B9.bioc.compEpiTools    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

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

Tools for computational epigenomics

Bioconductor version: Development (3.15)

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, cre]

Maintainer: Kamal Kishore <kamal.fartiyal84 at gmail.com>

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

Installation

To install this package, start R (version "4.2") and enter:

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

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

BiocManager::install("compEpiTools")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF   Reference Manual

Details

biocViews Coverage, GeneExpression, GenomeAnnotation, Sequencing, Software, Visualization
Version 1.29.2
In Bioconductor since BioC 3.0 (R-3.1) (7 years)
License GPL
Depends R (>= 3.1.1), methods, topGO, GenomicRanges
Imports AnnotationDbi, BiocGenerics, Biostrings, Rsamtools, parallel, grDevices, gplots, IRanges, GenomicFeatures, XVector, methylPipe, GO.db, S4Vectors, GenomeInfoDb
LinkingTo
Suggests BSgenome.Mmusculus.UCSC.mm9, TxDb.Mmusculus.UCSC.mm9.knownGene, org.Mm.eg.db, knitr, rtracklayer
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
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/
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