diff --git a/README.Rmd b/README.Rmd index b4471087..6407caf1 100644 --- a/README.Rmd +++ b/README.Rmd @@ -3,6 +3,7 @@ output: github_document --- + ```{r, include = FALSE} knitr::opts_chunk$set( @@ -41,15 +42,12 @@ Lesson content is published with a [CC-BY license](LICENSE.md). Current maintainers of these tutorials are: -- [Andree Valle-Campos](https://github.com/avallecam/) (Content) -- [Hugo Gruson](https://github.com/Bisaloo/) (Infrastructure) +- [Andree Valle-Campos](https://github.com/avallecam/) - diff --git a/README.md b/README.md index 9791a008..cf13e699 100644 --- a/README.md +++ b/README.md @@ -33,6 +33,7 @@ the pages, see the [Introduction to The Carpentries Workbench](https://carpentries.github.io/sandpaper-docs/). + ## License @@ -45,6 +46,11 @@ Current maintainers of these tutorials are: - [Andree Valle-Campos](https://github.com/avallecam/) +Former maintainers: + +- [Hugo Gruson](https://github.com/Bisaloo/) + + ## Related @@ -77,20 +83,19 @@ use it](https://citation-file-format.github.io/).) To cite these tutorials in publications use: - Minter A, Degoot A (2025). "Epiverse-TRACE Tutorials Late: Scenario - modelling for outbreak analytics with R." + Minter A, Degoot A, Valle-Campos A, Gruson H, Bah B, Funk S, Eggo R, Kucharski A (2026). "Epiverse-TRACE Tutorials Late: Scenario modelling for outbreak analytics with R." . A BibTeX entry for LaTeX users is: - @Misc{minter_etall:2025, + @Misc{minter_etall:2026, title = {Epiverse-TRACE Tutorials Late: Scenario modelling for outbreak analytics with R}, - author = {Amanda Minter and Abdoelnaser Degoot}, - year = {2025}, + author = {Amanda Minter and Abdoelnaser Degoot and Andree Valle-Campos and Hugo Gruson and Bubacarr Bah and Sebastian Funk and Rosalind Eggo and Adam Kucharski}, + year = {2026}, url = {https://epiverse-trace.github.io/tutorials-late/}, abstract = {The Epiverse-TRACE initiative aims to provide a software ecosystem for outbreak analytics with integrated, generalisable and scalable community-driven software. We support the development of R packages, make the existing ones interoperable for the user experience, and stimulate a community of practice. In the outbreak analytics curriculum, we built three tutorials around an outbreak analysis pipeline split into three stages: Early, Middle, and Late tasks. Early tasks include reading, cleaning and validating case data, and converting line list data to incidence for visualizing epidemic curves. Middle tasks host real-time analysis that includes accessing epidemiological delays, estimating transmission metrics, forecasting, and severity from incidence data, superspreading from line list and contact data, and simulating transmission chains. Late tasks include accessing and analyzing social contact matrices, scenario modelling to simulate disease spread and investigate interventions, and modelling disease burden.}, keywords = {outbreak-analytics,scenario-modelling,contact-matrix,non-pharmaceutical-interventions,vaccination,disease-burden,carpentries-workbench,rstats,english-language}, - version = {v2025-03-11}, + version = {v2026-07-23}, } ## Contact diff --git a/config.yaml b/config.yaml index 6639f9e7..e59aeef2 100644 --- a/config.yaml +++ b/config.yaml @@ -21,7 +21,7 @@ keywords: 'epidemic models, interventions' # Life cycle stage of the lesson # possible values: pre-alpha, alpha, beta, stable -life_cycle: 'pre-alpha' +life_cycle: 'beta' # License of the lesson materials (recommended CC-BY 4.0) license: 'CC-BY 4.0' diff --git a/index.md b/index.md index 289f4f94..f67b9ddc 100644 --- a/index.md +++ b/index.md @@ -2,7 +2,7 @@ site: sandpaper::sandpaper_site --- -This is an [Epiverse-TRACE][epiversetrace] tutorial built with [The Carpentries Workbench][workbench]. +This is an [Epiverse-TRACE][epiversetrace] tutorial. [epiversetrace]: https://epiverse-trace.github.io/ [workbench]: https://carpentries.github.io/workbench/