Calypso: a user-friendly web-server for mining and visualizing microbiome–environment interactions
By Martha Zakrzewski, Carla Proietti, J. Ellis, Shihab Hasan, M. Brion, B. Berger, L. Krause. Bioinform., 2016
545 citations recorded by the source corpus.
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. Availability and Implementation: 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. Contact: l.krause@uq.edu.au Supplementary information: Supplementary data are available at Bioinformatics online.
Subfields: Ecology, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/cfdae9fc3f73afac40c82aa38993c45646ed9585
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Citations in the corpus
- Current challenges and best-practice protocols for microbiome analysis (2019, methodology): “Calypso can be used to perform compositional analysis of large metagenomics datasets with univariate and multivariate statistical tests and data representations.”