similaRpeak

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

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

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

Bioconductor version: Release (3.23)

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>

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

Astrid Deschênes, Elsa Bernatchez, Charles Joly Beauparlant, Fabien Claude Lamaze, Rawane Samb, Pascal Belleau, Arnaud Droit. similaRpeak: Metrics to estimate a level of similarity between two ChIP-Seq profiles. doi:10.18129/B9.bioc.similaRpeak, R package version 1.44.0, https://bioconductor.org/packages/similaRpeak.

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("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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	BiologicalQuestion, ChIPSeq, DifferentialExpression, Genetics, MultipleComparison, Software
Version	1.44.0
In Bioconductor since	BioC 3.1 (R-3.2) (11.5 years)
License	Artistic-2.0
Depends	R6 (>= 2.0)
Imports	stats
System Requirements
URL	https://github.com/adeschen/similaRpeak
Bug Reports	https://github.com/adeschen/similaRpeak/issues

Suggests	RUnit, BiocGenerics, knitr, Rsamtools, GenomicAlignments, rtracklayer, rmarkdown, BiocStyle
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	similaRpeak_1.44.0.tar.gz
Windows Binary (x86_64)	similaRpeak_1.44.0.zip
macOS Binary (big-sur-x86_64)	similaRpeak_1.44.0.tgz
macOS Binary (sonoma-arm64)	similaRpeak_1.44.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/similaRpeak
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/similaRpeak
Package Short Url	https://bioconductor.org/packages/similaRpeak/
Package Downloads Report	Download Stats