4 papers
Gaussian process priors with Markov properties for effective reproduction number inference
Jessalyn N. Sebastian, Volodymyr M. Minin
Many quantities characterizing infectious disease outbreaks - like the effective reproduction number (), defined as the average number of secondary infections a newly infected…
The signal is not flushed away: Inferring the effective reproduction number from wastewater data in small populations
Isaac H. Goldstein, Daniel M. Parker, Sunny Jiang +2
The effective reproduction number is an important descriptor of an infectious disease epidemic. In small populations, ideally we would estimate the effective reproduction number us…
Phylogenetic least squares estimation without genetic distances
Peter B. Chi, Volodymyr M. Minin
Least squares estimation of phylogenies is an established family of methods with good statistical properties. State-of-the-art least squares phylogenetic estimation proceeds by fir…
Semiparametric inference of effective reproduction number dynamics from wastewater pathogen surveillance data
Isaac H. Goldstein, Daniel M. Parker, Sunny Jiang +1
Concentrations of pathogen genomes measured in wastewater have recently become available as a new data source to use when modeling the spread of infectious diseases. One promising…