METAREP: JCVI metagenomics reports-an open source tool for high-performance comparative metagenomics
METAREP: JCVI metagenomics reports-an open source tool for high-performance comparative metagenomics
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DOI：
10.1093/bioinformatics/btq455
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发表时间：
2010-10-01
期刊：
影响因子：
5.8
通讯作者：
Yooseph, Shibu
中科院分区：
文献类型：
--
作者：
Goll, Johannes;Rusch, Douglas B.;Yooseph, Shibu
JCVI Metagenomics Reports（METAREP）是一个Web 2.0应用程序，旨在帮助科学家分析和比较注释的宏基因组数据集。它利用Solr/Lucene（一种可扩展的搜索引擎）来快速查询大型数据集合。此外，用户可以使用其类似SQL的查询语法来过滤和细化数据集。METAREP提供顶级分类和功能分类的图形摘要以及GO，NCBI Taxonomy和KEGG Pathway Browser。用户可以在各种功能和分类级别上比较多个数据集的绝对和相对计数。高级比较功能包括统计测试以及多维缩放、热图和分层聚类图。摘要可以导出为制表符分隔的文件，PDF格式的出版质量图。数据管理层允许协作数据分析和结果共享。
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.