Cov2clusters: genomic clustering of SARS-CoV-2 sequences.

ABSTRACT:

Background

The COVID-19 pandemic remains a global public health concern. Advances in sequencing technologies has allowed for high numbers of SARS-CoV-2 whole genome sequence (WGS) data and rapid sharing of sequences through global repositories to enable almost real-time genomic analysis of the pathogen. WGS data has been used previously to group genetically similar viral pathogens to reveal evidence of transmission, including methods that identify distinct clusters on a phylogenetic tree. Identifying clusters of linked cases can aid in the regional surveillance and management of the disease. In this study, we present a novel method for producing stable genomic clusters of SARS-CoV-2 cases, cov2clusters, and compare the accuracy and stability of our approach to previous methods used

SUBMITTER: Sobkowiak B 

PROVIDER: S-EPMC9579665 | biostudies-literature | 2022 Oct

REPOSITORIES: biostudies-literature