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QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science
Authors
Evan Bolyen,Jai Rideout
Matthew Dillon,Nicholas Bokulich,Christian Abnet,Gabriel Al‐Ghalith,Harriet Alexander,Eric Alm,Manimozhiyan Arumugam,Francesco Asnicar,Yang Bai,Jordan Bisanz,Kyle Bittinger,Asker Brejnrod,Colin Brislawn,C. Brown,Benjamin Callahan,Andrés Caraballo‐Rodríguez,John Chase,Emily Cope,Ricardo Silva,Pieter Dorrestein,Gavin Douglas,Daniel Durall,Claire Duvallet,Christian Edwardson,Madeleine Ernst,Mehrbod Estaki,Jennifer Fouquier,Julia Gauglitz,Deanna Gibson,Antonio González,Kestrel Gorlick,Jiarong Guo,Benjamin Hillmann,Susan Holmes,Hannes Holste,Curtis Huttenhower,Gavin Huttley,Stefan Janssen,Alan Jarmusch,Lingjing Jiang,Benjamin Kaehler,Kyo Kang,Christopher Keefe,Paul Keim,Scott Kelley,Dan Knights,Irina Koester,Tomasz Kościółek,Jorden Kreps,Morgan Langille,Joslynn Lee,Ruth Ley,Yongxin Liu,Erikka Loftfield,Catherine Lozupone,Massoud Maher,Clarisse Marotz,Bryan Martin,Daniel McDonald,Lauren McIver,Alexey Melnik,Jessica Metcalf,Sydney Morgan,Jamie Morton,Ahmad Naimey,José Navas-Molina,Louis‐Félix Nothias,Stephanie Orchanian,Talima Pearson,Samuel Peoples,Daniel Petras,Mary Preuss,Elmar Pruesse,Lasse Rasmussen,Adam Rivers,Michael Robeson,Patrick Rosenthal,Nicola Segata,Michael Shaffer,Arron Shiffer,Rashmi Sinha,Se Song,John Spear,Austin Swafford,Luke Thompson,Pedro Torres,Pauline Trinh,Anupriya Tripathi,Peter Turnbaugh,Sabah Ul-Hasan,Justin Hooft,Fernando Vargas,Yoshiki Vázquez‐Baeza,Emily Vogtmann,Max Hippel,William Walters,Yunhu Wan,Mingxun Wang,Jonathan Warren,Kyle Weber,Chase Williamson,Amy Willis,Zhenjiang Xu,Jesse Zaneveld,Yilong Zhang,Rob Knight,J. Caporaso,Hattie Alexander
+108 authors
,Louis NothiasPublished
Oct 24, 2018
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Abstract
We present QIIME 2, an open-source microbiome data science platform accessible to users spanning the microbiome research ecosystem, from scientists and engineers to clinicians and policy makers. QIIME 2 provides new features that will drive the next generation of microbiome research. These include interactive spatial and temporal analysis and visualization tools, support for metabolomics and shotgun metagenomics analysis, and automated data provenance tracking to ensure reproducible, transparent microbiome data science.
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