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compEpiTools

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

Tools for computational epigenomics


Bioconductor version: Development (3.19)

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")):

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("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

Details

biocViews Coverage, GeneExpression, GenomeAnnotation, Sequencing, Software, Visualization
Version 1.37.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 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, GenomeInfoDb
System Requirements
URL
See More
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

Package Archives

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

Source Package compEpiTools_1.37.0.tar.gz
Windows Binary compEpiTools_1.37.0.zip
macOS Binary (x86_64) compEpiTools_1.37.0.tgz
macOS Binary (arm64) compEpiTools_1.37.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/compEpiTools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/compEpiTools
Bioc Package Browser https://code.bioconductor.org/browse/compEpiTools/
Package Short Url https://bioconductor.org/packages/compEpiTools/
Package Downloads Report Download Stats