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phylosamp - Sample Size Calculations for Molecular and Phylogenetic Studies
Implements novel tools for estimating sample sizes needed for phylogenetic studies, including studies focused on estimating the probability of true pathogen transmission between two cases given phylogenetic linkage and studies focused on tracking pathogen variants at a population level. Methods described in Wohl, Giles, and Lessler (2021) and in Wohl, Lee, DiPrete, and Lessler (2023).
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phylogeneticssampling
6.75 score 13 stars 29 scripts 238 downloadsIDSpatialStats - Estimate Global Clustering in Infectious Disease
Implements various novel and standard clustering statistics and other analyses useful for understanding the spread of infectious disease.
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2.69 score 1 stars 33 scripts 182 downloads