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[FRB-CESAB] Data Toolbox for Reproducible Research in Computational Ecology – 2021

Versioning, reproducibility, compendium  and containerization

[FRB-CESAB] Data Toolbox for Reproducible Research in Computational Ecology – 2021

The CESAB and the GdR EcoStat organize the third 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 (e.g. R, git, markdown, tidyverse, docker), applied to biodiversity research.


The training course, in French, will take place from the 29th of November to the 3rd of December 2021 in the CESAB premises in Montpellier. Price is 300 € for the week, including lunch. Travel, accommodation and evening meals will be at the expense of the participants. Grants may be awarded to some participants (for an amount not exceeding the registration fee): one grant from the FRB and one grant from the GdR EcoStat (for students belonging to a laboratory member of the GdR).


The training course can be credited for students registered in the following doctoral schools:

  • GAIA (Montpellier)
  • EGAAL (Rennes)
  • ABIES (Paris)
  • Sciences and agrosciences (Avignon)
  • SEVAB (Toulouse) 
  • Sciences de l’environnement (Aix en Provence)
List of speakers (in alphabetical order):
  • Stéphane DRAY (CNRS LBBE)
  • Olivier GIMENEZ (CNRS Cefe)
  • Loreleï GUÉRY (CIRAD PHIM)
  • François GUILHAUMON (IRD Marbec)
Useful information

29 Nov. – 3 Dec. 2021


• Opening of pre-registration:

17th June 2021


• Pre-registration deadline:

31st July 2021, midnight (CEST)


5, rue de l’École de médecine

34000 Montpellier




Nicolas CASAJUS 


Monday 29th November 2021
  • Welcome and presentation of the week
  • Open Science and Reproducible Research
  • Research Compendium
  • Versioning and sharing (git, GitHub, etc.)
Tuesday 30th November 2021
  • Data wrangling and visualization (tidyverse and ggplot2)
  • Literate programming (Rmarkdown)
Wednesday 1st December 2021
  • Workflow optimisation (drake)
  • Advanced reproducibility: containerization (docker), R package
Thursday 2nd December 2021
  • Group projects
Friday 3rd December 2021
  • Group projects
  • Projects presentation