compEpiTools

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see compEpiTools.

Tools for computational epigenomics

Bioconductor version: 3.21

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 "4.5") 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 1.42.0

In Bioconductor since BioC 3.0 (R-3.1) (11 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

Suggests BSgenome.Mmusculus.UCSC.mm9, TxDb.Mmusculus.UCSC.mm9.knownGene, org.Mm.eg.db, knitr, rtracklayer

Linking To

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Package Archives

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

Source Package compEpiTools_1.42.0.tar.gz

Windows Binary (x86_64) compEpiTools_1.42.0.zip

macOS Binary (x86_64) compEpiTools_1.42.0.tgz

macOS Binary (arm64) compEpiTools_1.42.0.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/

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