R

hmmIBDr

Rcpp implementation of [hmmIBD](https://github.com/glipsnort/hmmIBD).

hrp2malaRia

Individual based malaria transmission model for the study of P. falciparum pfhrp2 gene deletions

icer

Infection composition estimation in R

McCOILR

Rcpp implementation of [THEREALMcCOIL](https://github.com/Greenhouse-Lab/THEREALMcCOIL).

nimue

Vaccination model of SARS-CoV-2 transmission.

outbreakteachR

Paper outbreak teaching practical

rdhs

An R package to interact with DHS surveys

squire

Compartmental model of SARS-CoV-2 transmission.