Florian P Breitwieser1, Steven L Salzberg2. 1. Center for Computational Biology, Whiting School of Engineering, Johns Hopkins University, Baltimore, MD, USA. 2. Departments of Biomedical Engineering, Computer Science and Biostatistics, Johns Hopkins University, Baltimore, MD, USA.
Abstract
SUMMARY: Pavian is a web application for exploring classification results from metagenomics experiments. With Pavian, researchers can analyze, visualize and transform results from various classifiers-such as Kraken, Centrifuge and MethaPhlAn-using interactive data tables, heatmaps and Sankey flow diagrams. An interactive alignment coverage viewer can help in the validation of matches to a particular genome, which can be crucial when using metagenomics experiments for pathogen detection. AVAILABILITY AND IMPLEMENTATION: Pavian is implemented in the R language as a modular Shiny web app and is freely available under GPL-3 from http://github.com/fbreitwieser/pavian.
SUMMARY: Pavian is a web application for exploring classification results from metagenomics experiments. With Pavian, researchers can analyze, visualize and transform results from various classifiers-such as Kraken, Centrifuge and MethaPhlAn-using interactive data tables, heatmaps and Sankey flow diagrams. An interactive alignment coverage viewer can help in the validation of matches to a particular genome, which can be crucial when using metagenomics experiments for pathogen detection. AVAILABILITY AND IMPLEMENTATION: Pavian is implemented in the R language as a modular Shiny web app and is freely available under GPL-3 from http://github.com/fbreitwieser/pavian.
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