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Taxonium: a web-based tool for exploring large phylogenetic trees (preprint)
biorxiv; 2022.
Preprint
in English
| bioRxiv | ID: ppzbmed-10.1101.2022.06.03.494608
ABSTRACT
The COVID-19 pandemic has resulted in a step change in the scale of sequencing data, with more genomes of SARS-CoV-2 having been sequenced than any other organism on earth. Previous web-based tools for phylogenetic exploration were not able to directly scale to this size of tree. We have developed Taxonium, a new tool that uses WebGL to allow the exploration of trees with tens of millions of nodes. Taxonium allows visualisation of mutation-annotated trees, where the genotypes at each internal node are indicated, and also links each node to associated metadata. An optional server-side backend permits rapid loading for widely used datasets, while a client-only mode allows the exploration of niche or sensitive data. Taxonium is an open-source tool which can be applied to any large tree. We provide an application for exploring a public tree of more than five million SARS-CoV-2 sequences at http//cov2tree.org, the broader Taxonium tool at http//taxonium.org, and source code at https//github.com/theosanderson/taxonium.
Full text:
Available
Collection:
Preprints
Database:
bioRxiv
Main subject:
COVID-19
Language:
English
Year:
2022
Document Type:
Preprint
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