similaRpeak

DOI: 10.18129/B9.bioc.similaRpeak  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see similaRpeak.

Metrics to estimate a level of similarity between two ChIP-Seq profiles

Bioconductor version: 3.17

This package calculates metrics which quantify the level of similarity between ChIP-Seq profiles. More specifically, the package implements six pseudometrics specialized in pattern similarity detection in ChIP-Seq profiles.

Author: Astrid Deschênes [cre, aut], Elsa Bernatchez [aut], Charles Joly Beauparlant [aut], Fabien Claude Lamaze [aut], Rawane Samb [aut], Pascal Belleau [aut], Arnaud Droit [aut]

Maintainer: Astrid Deschênes <adeschen at hotmail.com>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("similaRpeak")

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("similaRpeak")

 

HTML	R Script	Similarity between two ChIP-Seq profiles
PDF		Reference Manual
Text		NEWS

Details

biocViews	BiologicalQuestion, ChIPSeq, DifferentialExpression, Genetics, MultipleComparison, Software
Version	1.32.0
In Bioconductor since	BioC 3.1 (R-3.2) (8.5 years)
License	Artistic-2.0
Depends	R6 (>= 2.0)
Imports	stats
LinkingTo
Suggests	RUnit, BiocGenerics, knitr, Rsamtools, GenomicAlignments, rtracklayer, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL	https://github.com/adeschen/similaRpeak
BugReports	https://github.com/adeschen/similaRpeak/issues
Depends On Me
Imports Me
Suggests Me	metagene
Links To Me
Build Report

Package Archives

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

Source Package	similaRpeak_1.32.0.tar.gz
Windows Binary	similaRpeak_1.32.0.zip
macOS Binary (x86_64)	similaRpeak_1.32.0.tgz
macOS Binary (arm64)	similaRpeak_1.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/similaRpeak
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/similaRpeak
Bioc Package Browser	https://code.bioconductor.org/browse/similaRpeak/
Package Short Url	https://bioconductor.org/packages/similaRpeak/
Package Downloads Report	Download Stats