species

Introduction

species is a sub-project of the BioForest project aimed at species related data (correct names, functional traits, phylogeny) as part of the data preparation for data preparation within the project.

Usage

All species analyses rely on the quarto documents (files.qmd) that can be run with R and associated environment defined with renv.

Project

species includes:

• Analyse of the data with associated documentation and figures:
  • Reproductive analyses in files.qmd
  • Resulting pages in docs/
  • Document structure definition in _quarto.yml
• Data in data/ with:
  • All raw data in raw_data/
  • All derived data in derived_sata/
• R scripts with funtions in r/
• Intermediary files in outputs/
• Figures in figures/
• R environment definition with renv in renv/ and renv/lock
• R files (.Rbuildignore , .Rdata , .Rprofile , .Rhistory, .lintr)
• Git and GitHub files (.gitignore , .github/)
• Project documentation (README.qmd , README.md , NEWS.md, LICENSE )

Contribution

You can contribute to the project by forking the repository on github and cloning the fork to your machine using several options, including GitHub desktop GUI. Further informations on contribution are detailed in the online document: https://bioforest-project.github.io/data_preparation/98_contributing.html.

Help

Please preferentially create an issue on GitHub for any questions, bugs or help needed regarding species: https://github.com/Bioforest-project/species/issues . You may however reach us by mail with people from the core group (see below).

Core group

• Sylvain Schmitt (sylvain.schmitt@cirad.fr)
• Camille Piponiot-Laroche (camille.piponiot-laroche@cirad.fr)
• Géraldine Derroire (geraldine.derroire@cirad.fr)
• Mithila Unkule (mithila.unkule@fondationbiodiversite.fr)
• Irié Cazimir Zo-Bi (iczobi@gmail.com)
• Anand Roopsind (aroopsind@gmail.com)

The whole group consist of participants to the Bioforest project.