plyranges

This is the development version of plyranges; for the stable release version, see plyranges.

A fluent interface for manipulating GenomicRanges

Bioconductor version: Development (3.21)

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] (ORCID: ), Michael Lawrence [aut, ctb], Dianne Cook [aut, ctb], Spencer Nystrom [ctb] (ORCID: ), Pierre-Paul Axisa [ctb], Michael Love [ctb, cre]

Maintainer: Michael Love <michaelisaiahlove at gmail.com>

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

Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

Introduction	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Coverage, DataRepresentation, Infrastructure, Software, WorkflowStep
Version	1.27.0
In Bioconductor since	BioC 3.7 (R-3.5) (6.5 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
System Requirements
URL
Bug Reports	https://github.com/tidyomics/plyranges

Suggests	knitr, BiocStyle, rmarkdown, testthat (>= 2.1.0), HelloRanges, HelloRangesData, BSgenome.Hsapiens.UCSC.hg19, pasillaBamSubset, covr, ggplot2
Linking To
Enhances
Depends On Me
Imports Me	BOBaFIT, BUSpaRse, cfDNAPro, Damsel, GenomicPlot, InPAS, katdetectr, mariner, methylCC, multicrispr, nearBynding, nullranges, plotgardener, plyinteractions, SARC, SingleMoleculeFootprinting, tidyomics, fluentGenomics, MOCHA
Suggests Me	EpiCompare, extraChIPs, memes, svaNUMT, svaRetro, tidyCoverage, CTCF
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	plyranges_1.27.0.tar.gz
Windows Binary (x86_64)	plyranges_1.27.0.zip (64-bit only)
macOS Binary (x86_64)
macOS Binary (arm64)
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