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

[1] A framework for collaborative analysis of ENCODE data: Making large-scale analyses biologist-friendly
Blankenberg, Daniel
Taylor, James
Schenck, Ian
He, Jianbin
Zhang, Yi
Ghent, Matthew
Veeraraghavan, Narayanan
Albert, Istvan
Miller, Webb
Makova, Kateryna D.
Hardison, Ross C.
Nekrutenko, Anton
[J]. 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
Cock, Peter J. A.
Fields, Christopher J.
Goto, Naohisa
Heuer, Michael L.
Rice, Peter M.
[J]. 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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