Pangolin

Phylogenetic Assignment of Named Global Outbreak Lineages

Pangolin was developed to implement the dynamic nomenclature of SARS-CoV-2 lineages, known as the Pango nomenclature. It allows a user to assign a SARS-CoV-2 genome sequence the most likely lineage (Pango lineage) to SARS-CoV-2 query sequences.

Pangolin assigns lineages to query sequences as described in Rambaut et al 2020.

Pangolin is available as a command line tool and a web application. The web application was developed by the Centre for Genomic Pathogen Surveillance. The command line tool is open source software available under the GNU General Public License v3.0.

Command-line tool

GNU General Public License v3.0

Web application

Developed by the Centre for Genomic Pathogen Surveillance.

Pangolin Documentation