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

Bioinformatics

Volumn 26, Issue 20, 2010, Pages 2631-2632

  Goll, Johannes ^a   Rusch, Douglas B ^a   Tanenbaum, David M ^a   Thiagarajan, Mathangi ^a   Li, Kelvin ^a   Methé, Barbara A ^a   Yooseph, Shibu ^a  

^a J CRAIG VENTER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPARATIVE STUDY; COMPUTER PROGRAM; FACTUAL DATABASE; INFORMATION RETRIEVAL; INTERNET; METAGENOMICS; METHODOLOGY;

DATABASES, FACTUAL; INFORMATION STORAGE AND RETRIEVAL; INTERNET; METAGENOMICS; SOFTWARE;

EID: 77957761759     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btq455     Document Type: Article

References (6)

1. Huson,D.H. et al. (2007) MEGAN analysis of metagenomic data. Genome Res., 17, 377-386.
2. Kristiansson,E. et al. (2009) ShotgunFunctionalizeR: an R-package for functional comparison of metagenomes. Bioinformatics, 25, 2737-2738.
3. Markowitz,V.M. et al. (2008) IMG/M: a data management and analysis system for metagenomes. Nucleic Acids Res., 36, D534-D538.
4. Meyer,F. et al. (2008) The metagenomics RAST server a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics, 9, 386.
5. Tanenbaum,D.M. et al. (2010) The JCVI standard operating procedure for annotating prokaryotic metagenomic shotgun sequencing data. Stand. Genomic Sci., 2,2.
6. White,J.R. et al. (2009) Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Comput. Biol., 5, e1000352.