Online Phylogenetics with matOptimize Produces Equivalent Trees and is Dramatically More Efficient for Large SARS-CoV-2 Phylogenies than de novo and Maximum-Likelihood Implementations.
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DOI: 10.1093/sysbio/syad031
Abstract: Phylogenetics has been foundational to SARS-CoV-2 research and public health policy, assisting in genomic surveillance, contact tracing, and assessing emergence and spread of new variants. However, phylogenetic analyses of SARS-CoV-2 have often relied on tools… read more here.
Keywords: matoptimize produces; online phylogenetics; cov phylogenies; maximum likelihood ... See more keywords
Stability of SARS-CoV-2 phylogenies
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DOI: 10.1371/journal.pgen.1009175
Abstract: The SARS-CoV-2 pandemic has led to unprecedented, nearly real-time genetic tracing due to the rapid community sequencing response. Researchers immediately leveraged these data to infer the evolutionary relationships among viral samples and to study key… read more here.
Keywords: sars cov; stability sars; cov phylogenies; cov genome ... See more keywords