METAREP: JCVI metagenomics reports-an open source tool for high-performance comparative metagenomics

被引：71

作者：

Goll, Johannes ^{[1
]}

Rusch, Douglas B. ^{[1
]}

Tanenbaum, David M. ^{[1
]}

Thiagarajan, Mathangi ^{[1
]}

Li, Kelvin ^{[1
]}

Methe, Barbara A. ^{[1
]}

Yooseph, Shibu ^{[1
]}

机构：

[1] J Craig Venter Inst, Rockville, MD 20850 USA

来源：

BIOINFORMATICS | 2010年 / 26卷 / 20期

关键词：

D O I：

10.1093/bioinformatics/btq455

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

JCVI Metagenomics Reports (METAREP) is a Web 2.0 application designed to help scientists analyze and compare annotated metagenomics datasets. It utilizes Solr/Lucene, a scalable search engine, to quickly query large data collections. Furthermore, users can use its SQL-like query syntax to filter and refine datasets. METAREP provides graphical summaries for top taxonomic and functional classifications as well as a GO, NCBI Taxonomy and KEGG Pathway Browser. Users can compare absolute and relative counts of multiple datasets at various functional and taxonomic levels. Advanced comparative features comprise statistical tests as well as multidimensional scaling, heatmap and hierarchical clustering plots. Summaries can be exported as tabdelimited files, publication quality plots in PDF format. A data management layer allows collaborative data analysis and result sharing.

引用

页码：2631 / 2632

页数：2

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