SACEMA
DSI-NRF Centre of Excellence in Epidemiological Modelling and Analysis
Stellenbosch, South Africa
Pinned Repositories
COVID10k
Estimating time to 10,000 COVID-19 cases in SA
incidence-estimation.org
The new website for incidence-estimation.org. Temporary URL:
inctools
Incidence Estimation Tools
measlesOutbreak
Measles outbreak in Stellenbosch
omicronSA
R_est_sa
Code for the last steps in the reproduction number (R) estimation pipeline described in https://www.medrxiv.org/content/10.1101/2022.07.22.22277932v1.full
reinfectionsBelinda
Repository for Belinda's MSc work on reinfections
repo_template
Repository template for student modelling projects
SACEMA.github.io
SACEMA pages
severity-monitoring
SARS-CoV-2 severity monitoring project
SACEMA's Repositories
SACEMA/COVID10k
Estimating time to 10,000 COVID-19 cases in SA
SACEMA/inctools
Incidence Estimation Tools
SACEMA/omicronSA
SACEMA/severity-monitoring
SARS-CoV-2 severity monitoring project
SACEMA/reinfectionsBelinda
Repository for Belinda's MSc work on reinfections
SACEMA/EpiEstim
A tool to estimate time varying instantaneous reproduction number during epidemics
SACEMA/gitSandbox
SACEMA/incidence-combined-method
Analytical code for estimating incidence using a combination of demographic and biomarker-based approaches
SACEMA/incidence-estimation.org
The new website for incidence-estimation.org. Temporary URL:
SACEMA/listeriaOutbreak
modeling decline of the listeriosis outbreak in SA
SACEMA/mdri-benchmarking
Simulation code used for benchmarking MDRI estimation methods
SACEMA/measlesOutbreak
Measles outbreak in Stellenbosch
SACEMA/R-course
Repository for SACEMA's R programming short course
SACEMA/R_est_sa
Code for the last steps in the reproduction number (R) estimation pipeline described in https://www.medrxiv.org/content/10.1101/2022.07.22.22277932v1.full
SACEMA/repo_template
Repository template for student modelling projects
SACEMA/SACEMA.github.io
SACEMA pages
SACEMA/secondWaves
SACEMA/DICE
DICE: Dynamics of Interacting Community Epidemics
SACEMA/idd
R Package for Infectious Disease Dynamics
SACEMA/incidence-synthetic-cohort
Performs basic HIV incidence Estimation according to the method of Mahiane et al (A general HIV incidence inference scheme based on likelihood of individual level data and a population renewal equation. PLoS One 2012; 7(9):e44377)
SACEMA/infection-dating-tool
Django app for the Infection Dating Tool
SACEMA/omicron_reinfections
Increased risk of SARS-CoV-2 reinfection associated with emergence of the Omicron variant in South Africa (Pulliam et al. 2021)
SACEMA/openscience
Repository for Open Science workshop at Research Days 2017
SACEMA/pooled-pcr
Cost-efficiency of pooled PCR testing for infant HIV diagnosis
SACEMA/rd
Research Days
SACEMA/SMART_testing
Thinking about testing and interpretation of incidence data