thibautjombart

adegenet

adegenet: a R package for the multivariate analysis of genetic markers

treespace

Explore spaces of phylogenetic trees

treescape

Exploring tree diversity

covid19_bed_occupancy

Shiny app providing estimates of future bed occupancy given recent admissions

OutbreakTools

Basic Tools for the Analysis of Disease Outbreaks

covid19_cases_from_deaths

Shiny app to infer caes from new deaths of COVID-19

apex

Phylogenetic Methods for Multiple Gene Data

cv

My cv

outbreaker

Disease outbreak reconstruction from epidemiological and genetic data

adegenet_docker

Docker images for the R package adegenet

nhs_pathways_monitoring

Real-time monitoring of potential COVID-19 cases reported through NHS pathways data

palettonr

R package to import and handle palettes from paletton.com

sneakr

talks

video-scripts

Scripts accompanying online videos

bmmix

Bayesian multinomial mixture model

branching_basics

Basic code for branching process simulators.

contact_tracing_optim

Evaluation of contact tracing optimisation method

epichange

New method to detect recent changes in incidence trends

epirecipes

contributions to Simon Frost's epirecipes

hugo-initio-site

Example web site for the Hugo-Initio theme

learn

RECON's platform for teaching

lecture-phylogenetics

LaTeX (beamer) slides of a phylogenetics lecture

MERS_camel_mod

misc

Collection of random, potentially useful stuff.

misc_figures

misc collection of figures used in publication, training etc.

quicksim

quick outbreak simulation script

rweekly.org

R Weekly

template_infrastructure

website

My blogdown website