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Repository Details

More Repositories

1

covid-sim

This is the COVID-19 CovidSim microsimulation model developed by the MRC Centre for Global Infectious Disease Analysis hosted at Imperial College, London.
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EpiEstim

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COVID19_CFR_submission

Repository for all scripts required to replicate the CFR analysis for paper submission.
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squire

SEIR transmission model of COVID-19. Documentation at:
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sircovid

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individual

R Package for individual based epidemiological models
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provisionr

πŸ“¦πŸ“¦βž‘οΈπŸ›οΈ Provision a library of R packages
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epireview

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11

PhyDyn

PhyDyn: Epidemiological modelling in BEAST
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rrq

πŸƒπŸƒπŸƒ Lightweight Redis queues
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13

skygrowth

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mcstate

✨🧹 Monte-Carlo State Space Models
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15

dust

✨✨✨ Iterate multiple realisations of stochastic models
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16

reactidd

This repository supports epidemiological and disease-dynamic analyses of data from the REal Time Assessment of Community Transmission (REACT) study. It includes both code and data. For code-related enquiries please contact Oliver Eales: [email protected]
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17

dde

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18

SIMPLEGEN

Simulating Plasmodium Epidemiological and Genetic Data
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19

bootstrap4-collapse

Just all the css and js you need from Bootstrap4 to implement their collapse functionality.
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20

ring

πŸ’ Ring buffers
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21

drjacoby

Flexible Markov chain monte carlo via reparameterization
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22

didehpc

β˜οΈπŸ’»β˜οΈ Support for the DIDE cluster
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23

nimue

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24

syncr

πŸ”ƒ R interface to rsync
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25

deterministic-malaria-model

Deterministic malaria model using odin
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26

global-lmic-reports

Global LMIC COVID-19 reports. Updated to include HICs. Previous data is periodically backed up at https://mrcdata.dide.ic.ac.uk/global-lmic-reports/
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27

naomi

Naomi model for subnational HIV estimation
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28

reestimate_covidIFR_analysis

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29

spam.mpxv

Stochastic pair approximation model for Monkeypox virus
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8
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30

global-lmic-reports-orderly

COVID-19 forecast reports for LMICs
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8
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31

cinterpolate

πŸ“Šβž‘οΈγ€°οΈ Interpolating functions from C, in R
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32

malariasimulation

The malaria model
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7
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33

tfpscanner

Transmission fitness polymorphism scanner
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34

eppasm

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35

Brazil_COVID19_distributions

This repository contains code and data for the "Inference of COVID-19 epidemiological distributions from Brazilian hospital data" manuscript
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6
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36

infectiousdiseasemodels-2022

Introduction to Mathematical Models of the Epidemiology & Control of Infectious Diseases - 2022
R
6
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37

sarscov2-transmission-england

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6
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38

priority-pathogens

https://mrc-ide.github.io/priority-pathogens/
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39

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40

covid-vaccine-impact-orderly

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41

odin.js

Compile odin models to javascript
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5
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42

demogsurv

Analysis of demographic indicators from Demographic and Health Surveys (DHS) and other household surveys
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5
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43

epihawkes

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44

contact_patterns

🀝🀧 Systematic review of contact surveys relevant to transmission of respiratory pathogens 🀧🀝
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5
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45

welcome

πŸ‘‹πŸ‘‹πŸ‘‹ Get started at mrc-ide
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46

helios

Simulating far UVC for pathogen control
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47

tfpbrowser

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4
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48

odin-dust-tutorial

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49

apothecary

πŸ’ŠπŸ₯πŸ‘Œ SEIR Model of COVID-19 Transmission for Modelling Impact of Treatments and Therapeutics πŸ‘ŒπŸ₯πŸ’Š
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50

shinyq

🌟🚢🚢🚢🌟 shiny application with a queue
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4
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51

context

♻️ Reproduce an environment
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4
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52

queuer

🚢🚢🚢 Prototype general queue
R
4
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53

RMAPI

Mapping Averaged Pairwise Information in R
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4
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54

malariaModelFit

Rcpp package containing code for fitting malaria model by MCMC
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4
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55

malariaEquilibrium

R
4
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56

covfefe

Flexible simulation of P. falciparum genetic data
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57

conan

πŸ“¦πŸ“¦βž‘οΈπŸ›οΈ Conan the Librarian βš”οΈ
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4
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58

bhrp

Code for linking Bellman Harris with Renewal Processes
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4
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59

infectiousdiseasemodels-2019

Introduction to Mathematical Models of the Epidemiology & Control of Infectious Diseases
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4
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60

dopri-js

πŸ•¦πŸ”œπŸ•˜ Ordinary and delay differential equation solver
TypeScript
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61

shiny_dide

🌟πŸ₯🌟 DIDE shiny server configuration
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62

PlasmoMAPI

Mapping Plasmodium Spatial Connectivity from Genetic Data
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4
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63

sarscov2-b.1.1.7

Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England (peer-reviewed)
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64

typochallengedata

Analysing data collected in typo challenge
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65

scott

Structured COalescent Transmission Tree simulation
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66

stochasticity-practical

βœ¨πŸ“ˆβœ¨ Shiny application for stochasticity practical
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67

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68

OmicronSeverity

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69

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70

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71

MissingCases

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72

covid_global_impact

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73

ccmpp.tmb

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74

COVIDCurve

Simple Inference of age-specific IFRs for COVID-19 using a Bayesian statistical model
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75

siR

πŸ€’ Individual-based SIR models in R and Rcpp πŸ€’
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76

typochallenge

β˜‘οΈπŸ“†βŽ Typo challenge
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77

odin.dust

Compile odin to dust
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78

drjacoby_training

Holds the material (scripts, lectures etc) for the training workshop on drjacoby
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79

covid19_mainland_China_report

HTML
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80

POLICI_africa_south_america

Shiny app to show African and South American YF coverage
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2
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81

mint

Malaria Indicators Tool
TypeScript
2
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82

mlesky-experiments

R
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83

wodin-msc-idm-2022

R
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84

drat

πŸ“¦πŸ“¦πŸ“¦ drat repository
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85

spimalot

R
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86

hermione

R
2
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87

MIPanalyzer

Filtering and analysis of MIP data
R
2
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88

YFburden

R
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89

global-lmic-reports-staging

Daily updated LMIC COVID-19 reports (Staging)
HTML
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90

outbreakteachR

Demonstration of analysis associated to "paper outbreak" teaching practical
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2
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91

YFestimation

R
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92

buildr

πŸ‘·πŸ“¦ Build packages on request
R
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93

hint-deploy

Deployment tool for hint
Python
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94

umbrella

β˜‚οΈ Rainfall & Seasonality β˜‚οΈ
R
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95

leapfrog

Multistate population projection model for demographic estimation.
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2
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96

msc-istda-2019

Introduction to Statistical Thinking and Data Analysis, MSc Epidemiology and MSc Health Data Analytics 2019
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97

YellowFeverModelEstimation2019

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98

beers

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R
2
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99

novel-data-streams

2
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100

heartbeatr

πŸ’—πŸ’»πŸ’— Redis heartbeat support
R
2
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