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>

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

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

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