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seqTools

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see seqTools.

Analysis of nucleotide, sequence and quality content on fastq files


Bioconductor version: 3.12

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>

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

Installation

To install this package, start R (version "4.0") and enter: 


if (!require("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")
Introduction PDF R Script
seqTools_qual_report PDF R Script
Reference Manual PDF
NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews QualityControl, Sequencing, Software
Version 1.24.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License Artistic-2.0
Depends methods, utils, zlibbioc
Imports
System Requirements
URL
See More
Suggests RUnit, BiocGenerics
Linking To zlibbioc
Enhances
Depends On Me
Imports Me qckitfastq
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package seqTools_1.24.0.tar.gz
Windows Binary seqTools_1.24.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) seqTools_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/seqTools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/seqTools
Bioc Package Browser https://code.bioconductor.org/browse/seqTools/
Package Short Url https://bioconductor.org/packages/seqTools/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.12 Source Archive