December 2024 I Course I Cesab I
![[FRB-CESAB] Data Toolbox for Reproducible Research in Computational Ecology – 2024](https://www.fondationbiodiversite.fr/wp-content/uploads/2023/04/logo-rdatatoolbox_web-2.jpg)
[FRB-CESAB] Data Toolbox for Reproducible Research in Computational Ecology – 2024
Version control, reproducibility, compendium and containerization
Pre-registrations for this training course are open.
Please beware, the number of places being limited, successful applications will be confirmed at the end of July.
The CESAB – Centre for Biodiversity Synthesis and Analysis – and the RT EcoStat organize the sixth edition of the training course “Data Toolbox for Reproducible Research in Computational Ecology”. The objective of this five-day course is to train young researchers in reproducibility, software development and version management tools (Git, GitHub, R Markdown, Quarto, renv, Docker), applied to biodiversity research.
This training will be given in French and will take place from December 2nd to 6th 2024 at CESAB in Montpellier. Its price is 150 € for the week – lunch included. Transportation, accommodation and evening meals are at the charge of the participants.
A good mastering of the R software is required.
Find the training course on GitHub
List of speakers (in alphabetical order):
- Iago BONNICI (CNRS ISEM)
- Nicolas CASAJUS (FRB-CESAB)
- François GUILHAUMON (IRD Entropie)
- Aurélie SIBERCHICOT (UCBL LBBE)
Program
The first four days will consist of lectures followed by exercises.
Monday
Monday
- Welcome and presentation of the week
- Open science & Reproducible research
- Project organization & Good practices
- Version control with git
- Version control with git (continued)
- Collaboration & sharing with GitHub
- Literate programming with Quarto
- Pipeline optimization with targets
- Developing an R package
- Freezing package versions with renv
- Containerization with Docker
- Subgroups projects
- Subgroups projects
- Subgroups projects presentation
Formulaire de pré-inscription
co-organizers
