seqTools

DOI: 10.18129/B9.bioc.seqTools    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see seqTools.

Analysis of nucleotide, sequence and quality content on fastq files

Bioconductor version: 3.9

Analyze read length, phred scores and alphabet frequency and DNA k-mers on uncompressed and compressed fastq files.

Author: Wolfgang Kaisers

Maintainer: Wolfgang Kaisers <kaisers at med.uni-duesseldorf.de>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("seqTools")

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("seqTools")

 

PDF	R Script	Introduction
PDF	R Script	seqTools_qual_report
PDF		Reference Manual
Text		NEWS

Details

biocViews	QualityControl, Sequencing, Software
Version	1.18.0
In Bioconductor since	BioC 3.0 (R-3.1) (5 years)
License	Artistic-2.0
Depends	methods, utils, zlibbioc
Imports
LinkingTo	zlibbioc
Suggests	RUnit, BiocGenerics
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	qckitfastq
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	seqTools_1.18.0.tar.gz
Windows Binary	seqTools_1.18.0.zip
Mac OS X 10.11 (El Capitan)	seqTools_1.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/seqTools
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/seqTools
Package Short Url	https://bioconductor.org/packages/seqTools/
Package Downloads Report	Download Stats