Recent Publications

More Publications

. Matching Species Names Across Biodiversity Databases: Sources, tools, pitfalls and best practices for taxonomic harmonization. Biodiversity Information Science and Standards, 2021.

PDF Code Project Project DOI Shiny Application

. Harmonizing taxon names in biodiversity data: a review of tools, databases, and best practices. Methods in Ecology and Evolution, 2021.

Preprint PDF Code Dataset Project Project DOI Shiny Application

. The dimensionality and structure of species trait spaces. Ecology Letters, 2021.

PDF Code Project Project Project DOI: 10.1111/ele.13778 GitHub

. Global distribution and conservation status of ecologically rare mammal and bird species. Nature Communications, 2020.

Code Project Project DOI: 10.1038/s41467-020-18779-w

. Is prediction of species richness from stacked species distribution models biased by habitat saturation?. Ecological Indicators, 2020.

PDF Code DOI: 10.1016/j.ecolind.2019.105970 GitHub

R Packages

You can find a list of the packages I heavily contributed on my R-universe.

Package Name Package Status Description
ecolottery ecolottery CRAN badge an R package to simulate community assembly using coalescent theory
funrar funrar CRAN badge Compute functional rarity indices (see more at https://rekyt.github.io/funrar/)
rromeo rromeo CRAN badge   rromeo rOpenSci badge R client to SHERPA/RoMEO the database on journal archival policies (see more at https://ropensci.github.io/rromeo/)
fundiversity fundiversity CRAN badge Fast and modular computation of functional diversity indices
funbiogeo Lifecycle: maturing A package to help functional biogeography analyses
rtaxref rtaxref CRAN badge R client to the French Taxonomic Reference (see more at https://rekyt.github.io/rtaxref)
bnfimage bnfimage CRAN badge R client to the French National Library (BnF) Image API

Projects

Functional Diversity

Studying the distribution of species attribute diversity

Macroecology

Large-scale study of biodiversity to achieve generalization

Tools for Biodiversity Science

Create and contribute to new tools to advance biodiversity science

Functional Rarity: an additional biodiversity facet

What are the ecological and evolutionary mechanisms explaining functional rarity and functional originality?

Teaching

I gave more than 80 hours of courses at the different universities I’ve worked in:

Course name Level Total time
Descriptive Statistics
with R (UM)		 Bachelor’s
(2nd yr)		 50h
Functional Biogeography
with R (UM, material)		 Master’s
(2nd yr)		 8h
Guest Lecture
on Biodiversity Facets (UL)		 Master’s
(1st yr)		 2h
Biodiversity Facets
with R (UL, material)		 Master’s
(1st yr)		 6h
Group project
on Biodiversity Facets (UL)		 Master’s
(1st yr)		 20h
Introduction to git and GitHub
(UL/iDiv, material)		 PhD students
and postdocs		 10h

UM: University of Montpellier; UL: University of Leipzig

I am a certified Instructor for The Carpentries, focusing on R programming (especially for ecology) and Data Visualization.

I also founded the R User Group at the Center for Functional and Evolutionary Ecology in Montpellier. There, I organized regular 1h meet-ups on various R topics (plotting with ggplot2, mapping with sf, project organization with RStudio, workflow organization with drake, parallelization with future).

Tags

Contact

  • matthias.grenie@idiv.de
  • German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig; Puschstrasse 4; 04103 Leipzig