plyranges

DOI: 10.18129/B9.bioc.plyranges  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see plyranges.

A fluent interface for manipulating GenomicRanges

Bioconductor version: 3.16

A dplyr-like interface for interacting with the common Bioconductor classes Ranges and GenomicRanges. By providing a grammatical and consistent way of manipulating these classes their accessiblity for new Bioconductor users is hopefully increased.

Author: Stuart Lee [aut, cre] , Michael Lawrence [aut, ctb], Dianne Cook [aut, ctb], Spencer Nystrom [ctb]

Maintainer: Stuart Lee <stuart.andrew.lee at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("plyranges")

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("plyranges")

 

HTML	R Script	Introduction
PDF		Reference Manual
Text		NEWS

Details

biocViews	Coverage, DataRepresentation, Infrastructure, Software, WorkflowStep
Version	1.18.0
In Bioconductor since	BioC 3.7 (R-3.5) (5 years)
License	Artistic-2.0
Depends	R (>= 3.5), BiocGenerics, IRanges(>= 2.12.0), GenomicRanges(>= 1.28.4)
Imports	methods, dplyr, rlang (>= 0.2.0), magrittr, tidyselect (>= 1.0.0), rtracklayer, GenomicAlignments, GenomeInfoDb, Rsamtools, S4Vectors(>= 0.23.10), utils
LinkingTo
Suggests	knitr, BiocStyle, rmarkdown, testthat (>= 2.1.0), HelloRanges, HelloRangesData, BSgenome.Hsapiens.UCSC.hg19, pasillaBamSubset, covr, ggplot2
SystemRequirements
Enhances
URL
BugReports	https://github.com/sa-lee/plyranges
Depends On Me
Imports Me	BOBaFIT, BUSpaRse, cfDNAPro, dasper, fluentGenomics, InPAS, katdetectr, methylCC, multicrispr, nearBynding, nullranges, plotgardener
Suggests Me	CTCF, EpiCompare, extraChIPs, memes, svaNUMT, svaRetro
Links To Me
Build Report

Package Archives

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

Source Package	plyranges_1.18.0.tar.gz
Windows Binary	plyranges_1.18.0.zip
macOS Binary (x86_64)	plyranges_1.18.0.tgz
macOS Binary (arm64)	plyranges_1.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/plyranges
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/plyranges
Bioc Package Browser	https://code.bioconductor.org/browse/plyranges/
Package Short Url	https://bioconductor.org/packages/plyranges/
Package Downloads Report	Download Stats