Transmission Bottleneck Size Estimation from Pathogen Deep-Sequencing Data, with an Application to Human Influenza A Virus
A. Sobel Leonard, D. Weissman, B. Greenbaum, E. Ghedin, K. Koelle
This paper introduces a beta-binomial sampling method to estimate transmission bottleneck sizes from pathogen sequencing data, showing it outperforms existing methods and finding a mean bottleneck size of 196 virions for influenza A virus.
bioRxiv · Jan 19, 2017Microbiology