Quantifying transmission dynamics of acute hepatitis C virus infections in a heterogeneous population using sequence data

This upload contains data and all the scripts required to reproduce the results of the artice entitled "Quantifying transmission dynamics of acute hepatitis C virus infections in a heterogeneous population using sequence data".

Code is located within Code.zip . It contains scripts in R and Bash and launchers. Some of the scripts require data files contained within Data.zip.

Data is located within Data.zip , such as the sequences, the inferred phylogeny and the Beast XML file.