QIIME

Open-source bioinformatics pipeline for performing microbiome analysis from raw DNA sequencing data. The pipeline is designed to take users from raw sequencing data generated on the Illumina or other platforms through publication quality graphics and statistics. This includes demultiplexing and quality filtering, OTU picking, taxonomic assignment, and phylogenetic reconstruction, and diversity analyses and visualizations.

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Topics

Biology

Details

Tool Type:: web application
Operating Systems:: Linux, Mac
Added:: 10/19/2016
Last Updated:: 12/10/2018

Operations

Analysis

Publications

Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R. QIIME allows analysis of high-throughput community sequencing data. Nature Methods. 2010;7(5):335-336. doi:10.1038/nmeth.f.303. PMID:20383131. PMCID:PMC3156573.

DOI: 10.1038/nmeth.f.303

Documentation

General

http://qiime.org/tutorials/index.html

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