Phylogenetic Assignment of Named Global Outbreak Lineages
SARS-CoV-2 lineage nomenclature / From Wikipedia, the free encyclopedia
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The Phylogenetic Assignment of Named Global Outbreak Lineages (PANGOLIN) is a software tool developed by Dr. Áine O'Toole[2] and members of the Andrew Rambaut laboratory, with an associated web application developed by the Centre for Genomic Pathogen Surveillance in South Cambridgeshire.[3] Its purpose is to implement a dynamic nomenclature (known as the Pango nomenclature) to classify genetic lineages for SARS-CoV-2, the virus that causes COVID-19.[4] A user with a full genome sequence of a sample of SARS-CoV-2 can use the tool to submit that sequence, which is then compared with other genome sequences, and assigned the most likely lineage (Pango lineage).[5] Single or multiple runs are possible, and the tool can return further information regarding the known history of the assigned lineage.[5] Additionally, it interfaces with Microreact, to show a time sequence of the location of reports of sequenced samples of the same lineage.[5] This latter feature draws on publicly available genomes obtained from the COVID-19 Genomics UK Consortium and from those submitted to GISAID.[5] It is named after the pangolin.
Initial release | 30 April 2020; 3 years ago (2020-04-30) |
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Stable release | |
Repository | github |
Written in | Python |
License | GNU General Public License v3.0 |
Website | pangolin |