Pre-registrations for the 2023 training course session are closed.
The objective of this five-day training course, co-organized by the
FRB-CESAB
and the
GdR EcoStat,
is to train young researchers in reproducibility, software development and
version management tools (e.g. Git
, GitHub
, R Markdown
, Quarto
, renv
, Docker
),
applied to biodiversity research.
N.B. This training course is in French, but some slides are available in English in the tab Courses/
.
Monday | Icebreaker & Introduction to the week |
Open science & Reproducible research SLIDES | |
Research compendium & Good practices SLIDES | |
Version control with Git & GitHub SLIDESSLIDES
|
|
Tuesday |
Basics of R Markdown SLIDES
|
Extending R Markdown : websites, slides and dashboards
|
|
Introduction to Quarto
|
|
Pipeline toolkit with targets SLIDES
|
|
Wednesday |
Dealing with R package versions with renv SLIDES
|
Containerization with Docker SLIDES
|
|
Building an R package SLIDES | |
Thursday | Subgroups projects |
Friday | Subgroups projects |
Please follow this tutorial to install your working environment before attending the training course.
You also need to create an account on GitHub.
Discover the other training courses provided by the FRB-CESAB and its partners: https://frbcesab.github.io/training-courses/
Casajus N, Bonnici I, Dray S, Gimenez O, Guéry L, Guilhaumon F, Schiettekatte NMD & Siberchicot A (2023) FRB-CESAB & GdR EcoStat training course: Reproducible Research in Computational Ecology. Zenodo. http://doi.org/10.5281/zenodo.4262978.
If you see mistakes or want to suggest changes, please create an issue on the source repository.
Text and figures are licensed under Creative Commons Attribution CC BY 4.0. Source code is available at https://github.com/rdatatoolbox/rdatatoolbox.github.io, unless otherwise noted. The figures that have been reused from other sources don't fall under this license and can be recognized by a note in their caption: "Figure from ...".