adegenet: a R package for the multivariate analysis of genetic markers. - Thibaut Jombart (Bioinform., 2008)

adephylo: new tools for investigating the phylogenetic signal in biological traits. - Thibaut Jombart; François Balloux; Stéphane Dray (Bioinform., 2010)

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data. - Thibaut Jombart; Ismaïl Ahmed (Bioinform., 2011)

Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data. - Thibaut Jombart; Anne Cori; Xavier Didelot; Simon Cauchemez; Christophe Fraser; Neil M. Ferguson (PLoS Comput. Biol., 2014)

outbreaker2: a modular platform for outbreak reconstruction. - Finlay Campbell; Xavier Didelot; Richard G. FitzJohn; Neil M. Ferguson; Anne Cori; Thibaut Jombart (BMC Bioinform., 2018)

epiflows: an R package for risk assessment of travel-related spread of disease. - Paula Moraga; Ilaria Dorigatti; Zhian N. Kamvar; Pawel Piatkowski; Salla E. Toikkanen; V. P. Nagraj; Christl A. Donnelly; Thibaut Jombart (F1000Research, 2018)

epicontacts: Handling, visualisation and analysis of epidemiological contacts. - V. P. Nagraj; Nistara Randhawa; Finlay Campbell; Thomas Crellen; Bertrand Sudre; Thibaut Jombart (F1000Research, 2018)

A graph-based evidence synthesis approach to detecting outbreak clusters: An application to dog rabies. - Anne Cori; Pierre Nouvellet; Tini Garske; Hervé Bourhy; Emmanuel Nakouné; Thibaut Jombart (PLoS Comput. Biol., 2018)

Epidemic curves made easy using the R package incidence. - Zhian N. Kamvar; Jun Cai; Juliet R. C. Pulliam; Jakob Schumacher; Thibaut Jombart (F1000Research, 2019)

Bayesian inference of transmission chains using timing of symptoms, pathogen genomes and contact data. - Finlay Campbell; Anne Cori; Neil M. Ferguson; Thibaut Jombart (PLoS Comput. Biol., 2019)

Identifying and Addressing 6 Key Questions when Using Data Driven Scrum. - Jeffrey S. Saltz; Alex Sutherland; Thibaut Jombart (IEEE BigData, 2021)

Measuring the unknown: An estimator and simulation study for assessing case reporting during epidemics. - Christopher I. Jarvis; Amy Gimma; Flavio Finger; Tim P. Morris; Jennifer A. Thompson; Olivier Le Polain de Waroux; W. John Edmunds; Sebastian Funk; Thibaut Jombart (PLoS Comput. Biol., 2022)