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similaRpeak

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


Bioconductor version: Release (3.19)

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 DeschĂȘnes [cre, aut], Elsa Bernatchez [aut], Charles Joly Beauparlant [aut], Fabien Claude Lamaze [aut], Rawane Samb [aut], Pascal Belleau [aut], Arnaud Droit [aut]

Maintainer: Astrid DeschĂȘnes <adeschen at hotmail.com>

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

Installation

To install this package, start R (version "4.4") 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

Details

biocViews BiologicalQuestion, ChIPSeq, DifferentialExpression, Genetics, MultipleComparison, Software
Version 1.36.0
In Bioconductor since BioC 3.1 (R-3.2) (9 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
See More
Suggests RUnit, BiocGenerics, knitr, Rsamtools, GenomicAlignments, rtracklayer, rmarkdown, BiocStyle
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Package Archives

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

Source Package similaRpeak_1.36.0.tar.gz
Windows Binary similaRpeak_1.36.0.zip
macOS Binary (x86_64) similaRpeak_1.36.0.tgz
macOS Binary (arm64) similaRpeak_1.36.0.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