rSFFreader

DOI: 10.18129/B9.bioc.rSFFreader    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see rSFFreader.

rSFFreader reads in sff files generated by Roche 454 and Life Sciences Ion Torrent sequencers

Bioconductor version: 3.8

rSFFreader reads sequence, qualities and clip point values from sff files generated by Roche 454 and Life Sciences Ion Torrent sequencers into similar classes as are present for fastq files.

Author: Matt Settles <mattsettles at gmail.com>, Sam Hunter, Brice Sarver, Ilia Zhbannikov, Kyu-Chul Cho

Maintainer: Matt Settles <mattsettles at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("rSFFreader")

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("rSFFreader")

 

PDF	R Script	An introduction to rSFFreader
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, Sequencing, Software
Version	0.30.0
In Bioconductor since	BioC 2.11 (R-2.15) (6.5 years)
License	Artistic-2.0
Depends	ShortRead(>= 1.23.17)
Imports	methods, Biostrings, IRanges
LinkingTo	S4Vectors(>= 0.13.8), IRanges, XVector, Biostrings
Suggests	xtable
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	hiReadsProcessor
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	rSFFreader_0.30.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)	rSFFreader_0.30.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rSFFreader
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rSFFreader
Package Short Url	http://bioconductor.org/packages/rSFFreader/
Package Downloads Report	Download Stats