Epiverse-TRACE

sivirep

Data Wrangling and Automated Reports from 'SIVIGILA' source

epiparameter

R package with library of epidemiological parameters for infectious diseases and functions and classes for working with parameters

serofoi

Estimates the Force-of-Infection of a given pathogen from population based sero-prevalence studies

vaccineff

R package with tools for estimating vaccine effectiveness and vaccine related metrics

cleanepi

Data Cleaning Package

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.

linelist

R package for handling linelist data

epimodelac

Training materials for the epimodelac workshop

ColOpenData

ColOpenData is a package that acquires and wrangles Colombian socioeconomic, geospatial and climate data

epi-training-kit

An e-learning strategy for training on analysis, modelling and response to outbreaks and epidemics in Latin-America and the Caribbean

epiCo

R package for statistical and spatiotemporal modeling of epidemiological data for vector-borne diseases in Colombia

readepi

An R package for importing epi data into R.

epichains

[Not published - under active development] Methods for simulating and analysing the sizes and lengths of infectious disease transmission chains from branching process models

episoap

[Not published - under active development] A Store of Outbreak Analytics Pipelines Provided as Rmarkdown Report Templates

packagetemplate

Template of an R package with standard Epiverse-TRACE automation

simulist

An R package for simulating line lists

superspreading

Estimation of individual level variation in transmission

tutorials

blueprints

Software development blueprints for 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

etstats

datatagr

Tagging, validating, and safeguarding data to help harden data pipelines.

git-rstudio-basics

Version Control with Git using Rstudio

howto

research-compendium

tutorials-early

tutorials-late

tutorials-middle

.github

epiversetheme