Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification

Abstract

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.

Document Details

Document Type
Pub Defense Publication
Publication Date
Sep 25, 2019
Source ID
10.1093/bioinformatics/btz715

Entities

People

  • Florian P Breitwieser
  • Steven Salzberg

Organizations

  • Army Research Office
  • Johns Hopkins University
  • National Institutes of Health

Tags

Fields of Study

  • Biology

Readers

  • Agent-Based Social Robotics and Mobile-Assisted Learning in Virtual Environments.
  • Computer Vision.
  • Microbial Pathology