155 citations · 221 across the 10 of their papers we have counts for
11 papers
A Vector Representation for Phylogenetic Trees
Cedric Chauve, Caroline Colijn, Louxin Zhang
Good representations for phylogenetic trees and networks are important for optimizing storage efficiency and implementation of scalable methods for the inference and analysis of ev…
The Canadian VirusSeq Data Portal & Duotang: open resources for SARS-CoV-2 viral sequences and genomic epidemiology
Erin E. Gill, Baofeng Jia, Carmen Lia Murall +67
The COVID-19 pandemic led to a large global effort to sequence SARS-CoV-2 genomes from patient samples to track viral evolution and inform public health response. Millions of SARS-…
A Fast and Scalable Method for Inferring Phylogenetic Networks from Trees by Aligning Lineage Taxon Strings
Louxin Zhang, Niloufar Abhari, Caroline Colijn +1
The reconstruction of phylogenetic networks is an important but challenging problem in phylogenetics and genome evolution, as the space of phylogenetic networks is vast and cannot…
Spatial modeling of dyadic genetic relatedness data: Identifying factors associated with M. tuberculosis transmission in Moldova
Joshua L. Warren, Melanie H. Chitwood, Benjamin Sobkowiak +3
Understanding factors that contribute to the increased likelihood of disease transmission between two individuals is important for infection control. However, analyzing measures of…
A Maximum Entropy Method for the Prediction of Size Distributions
Cornelia Metzig, Caroline Colijn
We propose a method to derive the stationary size distributions of a system, and the degree distributions of networks, using maximisation of the Gibbs-Shannon entropy. We apply thi…
Estimating transmission from genetic and epidemiological data: a metric to compare transmission trees
Michelle Kendall, Diepreye Ayabina, Caroline Colijn
Reconstructing who infected whom is a central challenge in analysing epidemiological data. Recently, advances in sequencing technology have led to increasing interest in Bayesian a…