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rfaRm

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

An R interface to the Rfam database


Bioconductor version: Development (3.19)

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>

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

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("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")
rfaRm HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DataImport, FunctionalGenomics, MultipleSequenceAlignment, Software, ThirdPartyClient, Visualization
Version 1.15.2
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License GPL-3
Depends
Imports httr, stringi, rsvg, magick, data.table, Biostrings, utils, rvest, xml2, IRanges, S4Vectors, jsonlite
System Requirements
URL
See More
Suggests R4RNA, treeio, knitr, BiocStyle, rmarkdown, BiocGenerics, RUnit
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package rfaRm_1.15.2.tar.gz
Windows Binary rfaRm_1.15.2.zip
macOS Binary (x86_64) rfaRm_1.15.2.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/rfaRm
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rfaRm
Bioc Package Browser https://code.bioconductor.org/browse/rfaRm/
Package Short Url https://bioconductor.org/packages/rfaRm/
Package Downloads Report Download Stats