Epiverse-TRACE

All

59 repositories

epiverse-trace.github.io
Public
Technical blog of the Epiverse-TRACE project, where we share opinions and investigations in R package development, or scientific software development more generally
blog epiverse quarto-website
R
•3•3•12•2•Updated Nov 19, 2024Nov 19, 2024
blueprints
Public
Software development blueprints for epiverse-trace
best-practices standards onboarding internal-docs standard-operating-procedure epiverse r-package-development
SCSS
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Other
•4•4•27•2•Updated Nov 19, 2024Nov 19, 2024
etstats
Public
r r-package organisation-tool
R
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Creative Commons Zero v1.0 Universal
•0•2•2•0•Updated Nov 19, 2024Nov 19, 2024
epiverse-trace.r-universe.dev
Public
R-universe for the epiverse-trace GitHub organisation
infrastructure automation continuous-deployment epiverse
0•4•0•0•Updated Nov 19, 2024Nov 19, 2024
vaccineff
Public
R package with tools for estimating vaccine effectiveness and vaccine related metrics
epidemiology r-package epiverse vaccine-effectiveness r
R
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Other
•2•15•8•3•Updated Nov 19, 2024Nov 19, 2024
tutorials-middle
Public
R
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Other
•1•3•66•1•Updated Nov 19, 2024Nov 19, 2024
tutorials-middle-es
Public
0•0•1•0•Updated Nov 19, 2024Nov 19, 2024
epimodelac
Public
Training materials for the epimodelac workshop
r rstats carpentries-workbench
R
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Other
•4•8•11•2•Updated Nov 19, 2024Nov 19, 2024
epitkit
Public
R
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Other
•2•0•6•3•Updated Nov 19, 2024Nov 19, 2024
research-compendium
Public
reproducible-research rstats pre-alpha english-language research-compendium carpentries-workbench
R
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Other
•0•1•19•1•Updated Nov 19, 2024Nov 19, 2024
tutorials-late
Public
R
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Other
•1•2•36•5•Updated Nov 19, 2024Nov 19, 2024
tutorials-early
Public
R
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Other
•2•2•39•3•Updated Nov 19, 2024Nov 19, 2024
tutorials
Public
rstats pre-alpha english-language epidemic-modelling carpentries-workbench outbreak-analysis
R
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Other
•2•3•38•2•Updated Nov 19, 2024Nov 19, 2024
git-rstudio-basics
Public
Version Control with Git using Rstudio
github git version-control rstudio novice alpha-stage carpentries-workbench
R
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Other
•928•1•23•0•Updated Nov 19, 2024Nov 19, 2024
.github
Public
infrastructure continuous-integration quality-assurance defaults github-organization community-health r-package-automation
1•1•3•1•Updated Nov 19, 2024Nov 19, 2024
sivirep
Public
Data Wrangling and Automated Reports from 'SIVIGILA' source
public-health colombia r-package epidemiological-surveillance epiverse r
R
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Other
•3•41•9•2•Updated Nov 18, 2024Nov 18, 2024
safeframe
Public
Tagging, validating, and safeguarding data to help harden data pipelines.
R
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Other
•0•1•5•3•Updated Nov 18, 2024Nov 18, 2024
epichains
Public
Methods for simulating and analysing the sizes and lengths of infectious disease transmission chains from branching process models
epidemiology r-package r-stats epidemic-simulations branching-processes epidemic-modelling transmission-chain-reconstruction transmission-chain epidemiology-models outbreak-simulator
R
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Other
•2•7•25•3•Updated Nov 18, 2024Nov 18, 2024
climateR0
Public
R
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Other
•0•0•0•5•Updated Nov 16, 2024Nov 16, 2024
howto
Public
R
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Creative Commons Attribution 4.0 International
•2•1•60•2•Updated Nov 16, 2024Nov 16, 2024
epi-training-kit
Public template
An e-learning strategy for training on analysis, modelling and response to outbreaks and epidemics in Latin-America and the Caribbean
training data-science e-learning epidemics
HTML
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Creative Commons Attribution 4.0 International
•1•6•1•0•Updated Nov 15, 2024Nov 15, 2024
cleanepi
Public
R package to clean and standardize epidemiological data
r epidemiology r-package data-cleaning epiverse
R
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Other
•3•8•23•4•Updated Nov 15, 2024Nov 15, 2024
epiCo
Public
R package for statistical and spatiotemporal modeling of epidemiological data for vector-borne diseases in Colombia
colombia r-package demographics decision-support spatio-temporal-analysis vector-borne-diseases epiverse outbreak-analysis r
R
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Other
•1•12•7•0•Updated Nov 14, 2024Nov 14, 2024
sandpaper
Public
User Interface for The Carpentries Workbench
R
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Other
•27•0•0•1•Updated Nov 13, 2024Nov 13, 2024
varnish
Public
Epiverse-TRACE fork of the Carpentries' workbench varnish package
SCSS
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Other
•32•0•1•2•Updated Nov 13, 2024Nov 13, 2024
linelist
Public
R package for handling linelist data
data r data-structures epidemiology structured-data r-package outbreaks sdg-3 epiverse
R
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Other
•4•8•9•2•Updated Nov 13, 2024Nov 13, 2024
etdashboard
Public
Developer dashboard for a universe overview of Epiverse-TRACE packages
R
•0•1•0•0•Updated Nov 13, 2024Nov 13, 2024
epidemics
Public
A library of published compartmental epidemic models, and classes to represent demographic structure, non-pharmaceutical interventions, and vaccination regimes, to compose epidemic scenarios.
r rcpp epidemiology r-package decision-support vaccination scenario-analysis model-library epidemic-simulations rcppeigen
R
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Other
•2•8•17•1•Updated Nov 7, 2024Nov 7, 2024
serofoi
Public
Estimates the Force-of-Infection of a given pathogen from population based sero-prevalence studies
bayesian-methods epidemiology r-package antibodies serological-surveys stan-language epiverse r
R
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Other
•4•17•24•2•Updated Nov 6, 2024Nov 6, 2024
finalsize
Public
R package to calculate the final size of an SIR epidemic in populations with heterogeneity in social contacts and disease susceptibility
r rcpp epidemiology r-package epidemic-modelling sdg-3 epiverse outbreak-analysis
R
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Other
•7•11•14•0•Updated Nov 2, 2024Nov 2, 2024