similaRpeak

DOI: 10.18129/B9.bioc.similaRpeak    

This package is for version 3.15 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: 3.15

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 "4.2") 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 1.28.0
In Bioconductor since BioC 3.1 (R-3.2) (7.5 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_1.28.0.tar.gz
Windows Binary similaRpeak_1.28.0.zip (64-bit only)
macOS Binary (x86_64) similaRpeak_1.28.0.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: