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epiverse-trace

42 indexed repositories · View on GitHub

• sivirep

  Data Wrangling and Automated Reports from 'SIVIGILA' source

  R · 44 stars

• epiparameter

  R package with classes and helper functions for working with epidemiological parameters and access to a library of epidemiological parame...

  R · 38 stars

• serofoi

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

  R · 22 stars

• epidemics

  A library of published compartmental epidemic models, and classes to represent demographic structure, non-pharmaceutical interventions, a...

  R · 19 stars

• vaccineff

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

  R · 17 stars

• cfr

  R package to estimate disease severity and under-reporting in real-time, accounting for reporting delays in epidemic time-series

  R · 15 stars

• finalsize

  R package to calculate the final size of an SIR epidemic in populations with heterogeneity in social contacts and disease susceptibility

  R · 15 stars

• cleanepi

  R package to clean and standardize epidemiological data

  R · 13 stars

• ColOpenData

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

  R · 12 stars

• epiCo

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

  R · 12 stars

• linelist

  R package for handling linelist data

  R · 11 stars

• simulist

  An R package for simulating line lists

  R · 11 stars

• epichains

  Methods for simulating and analysing the sizes and lengths of infectious disease transmission chains from branching process models

  R · 10 stars

• epimodelac

  Training materials for the epimodelac workshop

  R · 8 stars

• packagetemplate

  Template of an R package with standard Epiverse-TRACE automation

  R · 6 stars

• climateR0

  R · 6 stars

• readepi

  An R package for importing epi data into R.

  R · 6 stars

• epiverse-trace.github.io

  Technical blog of the Epiverse-TRACE project, where we share opinions and investigations in R package development, or scientific software...

  R · 5 stars

• tutorials-early

  Tutorials to learn reading, cleaning and validating case data, and converting line list data to incidence for visualizing epidemic curves.

  R · 5 stars

• superspreading

  Estimation of individual-level variation in transmission

  R · 5 stars

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