ace2

Code and data used in Mollentze et al. (2022) "Variation in the ACE2 receptor has limited utility for SARS-CoV-2 host prediction".

beast_utils

A python library for generating and manipulating BEAST 1 XML files

borrelia_workflow

Borrelia mapping and variant calling snakemake pipeline

covid-uk

A fork of LSHTM's COVID-19 model to adapt to our data

geo_features

A python library for calculating geographical summary statistics

hiv_growth_rates

Code used in Sugrue et al. (2021), "The interferon resistance of transmitted HIV-1 is a consequence of enhanced replicative fitness".

isg_composition

Code for the machine learning component of Shaw, Rihn, Mollentze, et al. (2021) "The ‘antiviral state’ has shaped the CpG composition of the vertebrate interferome".

nardus

nardusmollentze.com

scrcdataapi

Package for hdf5 processing in R

stnn

Packaged version of Delasalles et al.'s spatio-temporal neural network model

zoonotic_rank

Code and data used in Mollentze et al. (2021) "Identifying and prioritizing potential human-infecting viruses from their genome sequences".