PHYLOViZ Online: Web-Based Tool for Visualization, Phylogenetic Inference, Analysis and Sharing of Minimum Spanning Trees

Nucleic Acids Res. 2016 Jul 8;44(W1):W246-51. doi: 10.1093/nar/gkw359. Epub 2016 Apr 29.

Abstract

High-throughput sequencing methods generated allele and single nucleotide polymorphism information for thousands of bacterial strains that are publicly available in online repositories and created the possibility of generating similar information for hundreds to thousands of strains more in a single study. Minimum spanning tree analysis of allelic data offers a scalable and reproducible methodological alternative to traditional phylogenetic inference approaches, useful in epidemiological investigations and population studies of bacterial pathogens. PHYLOViZ Online was developed to allow users to do these analyses without software installation and to enable easy accessing and sharing of data and analyses results from any Internet enabled computer. PHYLOViZ Online also offers a RESTful API for programmatic access to data and algorithms, allowing it to be seamlessly integrated into any third party web service or software. PHYLOViZ Online is freely available at https://online.phyloviz.net.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Alleles*
  • Computer Graphics
  • Databases, Genetic
  • Datasets as Topic
  • High-Throughput Nucleotide Sequencing
  • Information Dissemination
  • Information Storage and Retrieval
  • Internet
  • Phylogeny*
  • Polymorphism, Single Nucleotide
  • Serogroup
  • Streptococcus pneumoniae / classification*
  • Streptococcus pneumoniae / genetics
  • User-Computer Interface*