Course
Publié : 2 November 2020
I Mis à jour : 8 December 2021
[FRB-CESAB] Data Toolbox for Reproducible Research in Computational Ecology – 2020
Versioning, Reproducibility, Containerization, and Sharing
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The CESAB and the GDR EcoStat organize the second edition of the training course “Data Toolbox for Reproducible Research in Computational Ecology“. The objective of this five-day course, in French, is to train young researchers in reproducibility, software development and version management tools (e.g. R, git, markdown, tidyverse, docker), applied to biodiversity research.
The registration fee is 100 € for the week and will be used to compensate the speakers. Students from laboratories member of the GDR EcoStat can apply for financial support from the GDR.
The training course took place from 2 to 6 November 2020.
You can access the training course’s slides as well as the R codes.
List of speakers (in alphabetical order):
- Nicolas CASAJUS (FRB-CESAB)
- Stéphane DRAY (CNRS LBBE)
- Olivier GIMENEZ (CNRS Cefe)
- François GUILHAUMON (IRD Marbec)
- Nina SCHIETTEKATTE (EPHE Criobe)
Programme
Monday 2nd November 2020
09:00 – 11:00 Welcome and presentation of the week
11:00 – 12:30 Open Science and Reproducible Research
14:00 – 17:30 Versioning and sharing (git, GitHub, GitLab, etc.)
Tuesday 3rd November 2020
09:00 – 11:30 Research Compendium (rrtools, devtools, usethis)
11:30 – 12:30 Literate programming (Rmarkdown)
14:00 – 17:30 Data wrangling and visualization (tidyverse and sf)
Wednesday 4th November 2020
09:00 – 12:30 Workflow optimisation (drake)
14:00 – 17:30 Containerization (docker) and dependencies management (renv)
Thursday 5th November 2020
09:00 – 12:30 Group projects
14:00 – 17:30 Group projects
Friday 6th November 2020
09:00 – 12:30 Group projects
14:00 – 16:00 Projects presentation
co-organizer
