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Rsubread: high-performance read alignment, quantification and mutation discovery

Bioconductor version: 2.13

This R package provides easy-to-use tools for analyzing next-gen sequencing read data. Functions of these tools include quality assessment, read alignment, read summarization, exon-exon junction detection, absolute expression calling and SNP calling. These tools are highly efficient and accurate. They can be used to anlayze data generated from all major sequencing platforms such as Illumina GA/HiSeq/MiSeq, Roche GS-FLX, ABI SOLiD and LifeTech Ion PGM/Proton sequencers. This package can be installed on multiple operating systems incluidng Linux, Mac OS X, FreeBSD and Solaris.

Author: Wei Shi and Yang Liao with contributions from Jenny Zhiyin Dai and Timothy Triche, Jr.

Maintainer: Wei Shi <shi at>

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PDF R Script Rsubread Vignette
PDF   Reference Manual
Text   NEWS


biocViews Bioinformatics, ChIPseq, GeneExpression, GeneRegulation, GeneticVariability, Genetics, HighThroughputSequencing, Preprocessing, QualityControl, RNAseq, SNP, SequenceAnnotation, SequenceMatching, Sequencing, Software
Version 1.12.6
In Bioconductor since BioC 2.8 (R-2.13)
License GPL-3
System Requirements
Depends On Me
Imports Me
Suggests Me

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