Manipulation of FASTQ data with Galaxy

被引：491

作者：

Blankenberg, Daniel ^{[3
]}

Gordon, Assaf ^{[4
]}

Von Kuster, Gregory ^{[3
]}

Coraor, Nathan ^{[3
]}

Taylor, James ^{[1
,2
]}

Nekrutenko, Anton ^{[3
]}

机构：

[1] Emory Univ, Dept Biol, Atlanta, GA 30322 USA

[2] Emory Univ, Dept Math & Comp Sci, Atlanta, GA 30322 USA

[3] Penn State Univ, Huck Inst Life Sci, University Pk, PA 16803 USA

[4] Cold Spring Harbor Lab, Howard Hughes Med Inst, Watson Sch Biol Sci, Cold Spring Harbor, NY 11724 USA

来源：

BIOINFORMATICS | 2010年 / 26卷 / 14期

基金：

美国国家科学基金会;

关键词：

D O I：

10.1093/bioinformatics/btq281

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Here, we describe a tool suite that functions on all of the commonly known FASTQ format variants and provides a pipeline for manipulating next generation sequencing data taken from a sequencing machine all the way through the quality filtering steps.

引用

页码：1783 / 1785

页数：3

共 4 条

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Veeraraghavan, Narayanan ;

Albert, Istvan ;

Miller, Webb ;

Makova, Kateryna D. ;

Hardison, Ross C. ;

Nekrutenko, Anton .

GENOME RESEARCH, 2007, 17 (06) :960-964

[2]

Blankenberg Daniel, 2010, Curr Protoc Mol Biol, VChapter 19, DOI 10.1002/0471142727.mb1910s89

[3] The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants [J].

Cock, Peter J. A. ;

Fields, Christopher J. ;

Goto, Naohisa ;

Heuer, Michael L. ;

Rice, Peter M. .

NUCLEIC ACIDS RESEARCH, 2010, 38 (06) :1767-1771

[4]

Taylor James, 2007, Curr Protoc Bioinformatics, VChapter 10, DOI 10.1002/0471250953.bi1005s19

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