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30daychartchallenge

Repository containing code for the #30DayChartChallenge.

abc_r

Approximate Bayesian Computation for infectious disease modelling

amberland

Analysis and visualisation of antimicrobial resistance

amberlandtr

Machine learning based lineage tree reconstruction

amis_id

amisepi

Adaptive multiple importance sampling (AMIS) for infectious diseases

bayesianmultipledatasets

Bayesian inference for multiple datasets

beadsplating

Image analysis and simulation of plating with glass beads

beat-pd_dream_challenge

BEAT-PD DREAM Challenge

covid-19_prsa

Code relating to the PRSA COVID-19 modelling paper

covid19transm

Age-structured model for COVID 19 transmisison

ehr-dream-challenges

Example models to submit to the EHR DREAM Challenges

likelhood-functions-idd

Formulating likelihood functions for infectious disease dynamics for neglected tropical diseases

miscellaneous

ml_cell_lineage_reconstruction

Reconstruction of an in vitro cell lineages

ml_gene_expression

Mathematica notebook to compare methods of ML for ribosom density on mRNA prediction

pestdynamicsanddispersal

A framework for modelling migratory pest population dynamics and large-scale dispersal

trachomamis

A R package implementing Adaptive Multiple Importance Sampling (AMIS) for the inference of trachoma transmission parameters

vlsnthphermodel

Modelling of transmission of zoonotic visceral leishmaniasis and implementation of synthetic pheromone

wnv-forecast-data-2022

Data and forecast submission repository for the 2022 CDC West Nile virus Forecasting Challenge