title: Calypso: a user-friendly web-server for mining and visualizing microbiome-environment interactions.
abstract: Calypso is an easy-to-use online software suite that allows non-expert users to mine, interpret and compare taxonomic information from metagenomic or 16S rDNA datasets. Calypso has a focus on multivariate statistical approaches that can identify complex environment-microbiome associations. The software enables quantitative visualizations, statistical testing, multivariate analysis, supervised learning, factor analysis, multivariable regression, network analysis and diversity estimates. Comprehensive help pages, tutorials and videos are provided via a wiki page.
  
  
  
  The web-interface is accessible via http://cgenome.net/calypso/ . The software is programmed in Java, PERL and R and the source code is available from Zenodo ( https://zenodo.org/record/50931 ). The software is freely available for non-commercial users.
  
  
  
  l.krause@uq.edu.au.
  
  
  
  Supplementary data are available at Bioinformatics online.
authors.affiliation: QIMR Berghofer Medical Research Institute, Brisbane, QLD 4006, Australia.
authors.forename: Martha
authors.initials: M
authors.lastname: Zakrzewski
authors.affiliation: QIMR Berghofer Medical Research Institute, Brisbane, QLD 4006, Australia.
authors.forename: Carla
authors.initials: C
authors.lastname: Proietti
authors.affiliation: The University of Queensland Diamantina Institute, Brisbane, QLD 4102, Australia.
authors.forename: Jonathan J
authors.initials: JJ
authors.lastname: Ellis
authors.affiliation: QIMR Berghofer Medical Research Institute, Brisbane, QLD 4006, Australia.|The University of Queensland Diamantina Institute, Brisbane, QLD 4102, Australia.
authors.forename: Shihab
authors.initials: S
authors.lastname: Hasan
authors.affiliation: The University of Queensland Diamantina Institute, Brisbane, QLD 4102, Australia.
authors.forename: Marie-Jo
authors.initials: MJ
authors.lastname: Brion
authors.affiliation: Nestle Research Center, Vers-chez-les-Blanc, Lausanne, Switzerland.
authors.forename: Bernard
authors.initials: B
authors.lastname: Berger
authors.affiliation: QIMR Berghofer Medical Research Institute, Brisbane, QLD 4006, Australia.|The University of Queensland Diamantina Institute, Brisbane, QLD 4102, Australia.
authors.forename: Lutz
authors.initials: L
authors.lastname: Krause
mesh_terms: D057225:Data Mining / Q000379:methods*; D004777:Environment; D006801:Humans; D020407:Internet; D054892:Metagenome; D064307:Microbiota / Q000235:genetics / Q000502:physiology*; D010944:Plants; D012336:RNA, Ribosomal, 16S; D012984:Software; D013223:Statistics as Topic; D000069553:Supervised Machine Learning; D013559:Symbiosis
chemical_list: D012336:RNA, Ribosomal, 16S