Estimating Re and overdispersion in secondary cases from the size of identical sequence clusters of SARS-CoV-2.

doi:10.1371/journal.pcbi.1012960

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Article

Estimating Re and overdispersion in secondary cases from the size of identical sequence clusters of SARS-CoV-2.

PLoS computational biology - 1 Apr 2025

Hodcroft Emma B, Wohlfender Martin S, Neher Richard A, Riou Julien, Althaus Christian L

Abstract excerpt

The wealth of genomic data that was generated during the COVID-19 pandemic provides an exceptional opportunity to obtain information on the transmission of SARS-CoV-2. Specifically, there is great interest to better understand how the effective reproduction number [Formula: see text] and the overdispersion of secondary cases, which can be quantified by the negative binomial dispersion parameter k, changed over...

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Topics

COVID-19
SARS-CoV-2
Humans
Bayes Theorem
Genome, Viral
Computational Biology
Pandemics

Methodology Data sources Editorial policy Privacy Delete account & data About Contact Helena Bioinformatics

Basic Reproduction Number

Computer Simulation

Cluster Analysis

Germany

Switzerland

Mutation Rate

Mutation

Source

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Identifiers

PMID: 40233303
DOI: 10.1371/journal.pcbi.1012960
PMCID: PMC12040226

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