PIQA: pipeline for Illumina G1 genome analyzer data quality assessment

被引：27

作者：

Martinez-Alcantara, A. ^{[1
]}

Ballesteros, E. ^{[1
,2
]}

Feng, C. ^{[1
]}

Rojas, M. ^{[1
]}

Koshinsky, H. ^{[3
]}

Fofanov, V. Y. ^{[3
]}

Havlak, P. ^{[1
]}

Fofanov, Y. ^{[1
]}

机构：

[1] Univ Houston, Dept Comp Sci, Houston, TX 77204 USA

[2] Univ Guadalajara, Dept Phys, Guadalajara, Jalisco, Mexico

[3] Eureka Genom Corp, Houston, TX USA

来源：

BIOINFORMATICS | 2009年 / 25卷 / 18期

关键词：

D O I：

10.1093/bioinformatics/btp429

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

PIQA is a quality analysis pipeline designed to examine genomic reads produced by Next Generation Sequencing technology (Illumina G1 Genome Analyzer). A short statistical summary, as well as tile-by-tile and cycle-by-cycle graphical representation of clusters density, quality scores and nucleotide frequencies allow easy identification of various technical problems including defective tiles, mistakes in sample/library preparations and abnormalities in the frequencies of appearance of sequenced genomic reads. PIQA is written in the R statistical programming language and is compatible with bustard, fastq and scarf Illumina G1 Genome Analyzer data formats.

引用

页码：2438 / 2439

页数：2

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