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plyinteractions

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

Extending tidy verbs to genomic interactions


Bioconductor version: Development (3.19)

Operate on `GInteractions` objects as tabular data using `dplyr`-like verbs. The functions and methods in `plyinteractions` provide a grammatical approach to manipulate `GInteractions`, to facilitate their integration in genomic analysis workflows.

Author: Jacques Serizay [aut, cre]

Maintainer: Jacques Serizay <jacquesserizay at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

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

BiocManager::install("plyinteractions")

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("plyinteractions")
HiCarithmetic HTML R Script
plyinteractions HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Infrastructure, Software
Version 1.1.0
In Bioconductor since BioC 3.18 (R-4.3) (< 6 months)
License Artistic-2.0
Depends R (>= 4.3.0)
Imports InteractionSet, GenomeInfoDb, BiocGenerics, GenomicRanges, plyranges, IRanges, S4Vectors, rlang, dplyr, tibble, tidyselect, methods, utils
System Requirements
URL https://github.com/js2264/plyinteractions
Bug Reports https://github.com/js2264/plyinteractions/issues
See More
Suggests tidyverse, BSgenome.Mmusculus.UCSC.mm10, Biostrings, BiocParallel, scales, HiContactsData, rtracklayer, BiocStyle, covr, knitr, rmarkdown, sessioninfo, testthat (>= 3.0.0), RefManageR
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Package Archives

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

Source Package plyinteractions_1.1.0.tar.gz
Windows Binary plyinteractions_1.1.0.zip
macOS Binary (x86_64) plyinteractions_1.1.0.tgz
macOS Binary (arm64) plyinteractions_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/plyinteractions
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/plyinteractions
Bioc Package Browser https://code.bioconductor.org/browse/plyinteractions/
Package Short Url https://bioconductor.org/packages/plyinteractions/
Package Downloads Report Download Stats