Pinned Repositories
bpmodels
Methods for simulating and analysing the sizes and lengths of chains from branching process models
cfr
R package to estimate disease severity and under-reporting in real-time, accounting for reporting delays in epidemic time-series
cleanepi
R package to clean and standardize epidemiological data
epidemics
[Under active development] - A library of published compartmental epidemic models, and classes to represent demographic structure, non-pharmaceutical interventions, and vaccination regimes, to compose epidemic scenarios.
epiparameter
R package with library of epidemiological parameters for infectious diseases and functions and classes for working with parameters
finalsize
R package to calculate the final size of an SIR epidemic in populations with heterogeneity in social contacts and disease susceptibility
linelist
R package for handling linelist data
serofoi
Estimates the Force-of-Infection of a given pathogen from population based sero-prevalence studies
sivirep
Data Wrangling and Automated Reports from 'SIVIGILA' source
vaccineff
R package with tools for estimating vaccine effectiveness and vaccine related metrics
Epiverse-TRACE's Repositories
epiverse-trace/sivirep
Data Wrangling and Automated Reports from 'SIVIGILA' source
epiverse-trace/epiparameter
R package with library of epidemiological parameters for infectious diseases and functions and classes for working with parameters
epiverse-trace/serofoi
Estimates the Force-of-Infection of a given pathogen from population based sero-prevalence studies
epiverse-trace/vaccineff
R package with tools for estimating vaccine effectiveness and vaccine related metrics
epiverse-trace/cleanepi
R package to clean and standardize epidemiological data
epiverse-trace/epidemics
[Under active development] - A library of published compartmental epidemic models, and classes to represent demographic structure, non-pharmaceutical interventions, and vaccination regimes, to compose epidemic scenarios.
epiverse-trace/linelist
R package for handling linelist data
epiverse-trace/packagetemplate
Template of an R package with standard Epiverse-TRACE automation
epiverse-trace/epi-training-kit
An e-learning strategy for training on analysis, modelling and response to outbreaks and epidemics in Latin-America and the Caribbean
epiverse-trace/epiCo
R package for statistical and spatiotemporal modeling of epidemiological data for vector-borne diseases in Colombia
epiverse-trace/epimodelac
Training materials for the epimodelac workshop
epiverse-trace/readepi
An R package for importing epi data into R.
epiverse-trace/ColOpenData
ColOpenData is a package that acquires and wrangles Colombian socioeconomic, geospatial and climate data
epiverse-trace/epichains
[Under active development] Methods for simulating and analysing the sizes and lengths of infectious disease transmission chains from branching process models
epiverse-trace/simulist
An R package for simulating line lists
epiverse-trace/tutorials
epiverse-trace/blueprints
Software development blueprints for epiverse-trace
epiverse-trace/epiverse-trace.github.io
Technical blog of the Epiverse-TRACE project, where we share opinions and investigations in R package development, or scientific software development more generally
epiverse-trace/etstats
epiverse-trace/datatagr
Tagging, validating, and safeguarding data to help harden data pipelines.
epiverse-trace/git-rstudio-basics
Version Control with Git using Rstudio
epiverse-trace/numberize
Convert words to numbers in English, French and Spanish
epiverse-trace/research-compendium
epiverse-trace/tutorials-early
epiverse-trace/tutorials-late
epiverse-trace/tutorials-middle
epiverse-trace/.github
epiverse-trace/epiversetheme
epiverse-trace/shinny-epico
epiverse-trace/varnish
Epiverse-TRACE fork of the Carpentries' workbench varnish package