rfaRm

DOI: 10.18129/B9.bioc.rfaRm    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see rfaRm.

An R interface to the Rfam database

Bioconductor version: 3.15

rfaRm provides a client interface to the Rfam database of RNA families. Data that can be retrieved include RNA families, secondary structure images, covariance models, sequences within each family, alignments leading to the identification of a family and secondary structures in the dot-bracket format.

Author: Lara Selles Vidal, Rafael Ayala, Guy-Bart Stan, Rodrigo Ledesma-Amaro

Maintainer: Lara Selles Vidal <lara.selles at oist.jp>, Rafael Ayala <rafael.ayala at oist.jp>

Installation

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

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

BiocManager::install("rfaRm")

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("rfaRm")

 

HTML	R Script	rfaRm
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, FunctionalGenomics, MultipleSequenceAlignment, Software, ThirdPartyClient, Visualization
Version	1.8.0
In Bioconductor since	BioC 3.11 (R-4.0) (2.5 years)
License	GPL-3
Depends
Imports	httr, stringi, rsvg, magick, data.table, Biostrings, utils, rvest, xml2, IRanges, S4Vectors
LinkingTo
Suggests	R4RNA, treeio, knitr, BiocStyle, rmarkdown, BiocGenerics
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	rfaRm_1.8.0.tar.gz
Windows Binary	rfaRm_1.8.0.zip
macOS Binary (x86_64)	rfaRm_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rfaRm
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rfaRm
Package Short Url	https://bioconductor.org/packages/rfaRm/
Package Downloads Report	Download Stats