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plyranges

A fluent interface for manipulating GenomicRanges


Bioconductor version: Release (3.18)

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 "4.3") 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")
Introduction HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Coverage, DataRepresentation, Infrastructure, Software, WorkflowStep
Version 1.22.0
In Bioconductor since BioC 3.7 (R-3.5) (6 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/sa-lee/plyranges
See More
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, fluentGenomics, GenomicPlot, InPAS, katdetectr, mariner, methylCC, multicrispr, nearBynding, nullranges, plotgardener, plyinteractions, SARC
Suggests Me CTCF, EpiCompare, extraChIPs, memes, svaNUMT, svaRetro
Links To Me
Build Report Build Report

Package Archives

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

Source Package plyranges_1.22.0.tar.gz
Windows Binary plyranges_1.22.0.zip
macOS Binary (x86_64) plyranges_1.22.0.tgz
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