Matthias Grenié

Postdoctoral Researcher

University of Leipzig

Currently Post-doctoral Researcher at iDiv in Leipzig working with Marten Winter. Interested in, among others, Macroecology, Functional diversity, Open and Reproducible Science.

Interests

Community Ecology
Biogeography
Computational Ecology
Macroecology
Functional Diversity
R Programming
Reproducible Science
Open Science

Education

PhD in Ecology, 2020

Université de Montpellier – Centre d'Écologie Fonctionnelle et Évolutive
MSc in General Biology (minors in Evolutionary Biology, Ecology and Modelling), 2015

École Normale Supérieure de Lyon – Université Claude Bernard Lyon 1
BSc in General Biology (minors in Evolutionary Biology, Ecology and Modelling), 2013

École Normale Supérieure de Lyon – Université Claude Bernard Lyon 1

Recent Publications

More Publications

Matthias Grenié, Emilio Berti, Juan D. Carvajal-Quintero, Marten Winter, Alban Sagouis. Matching Species Names Across Biodiversity Databases: Sources, tools, pitfalls and best practices for taxonomic harmonization. BISS, 2021.

PDF Code Project Project DOI

Matthias Grenié, Emilio Berti, Juan D. Carvajal-Quintero, Alban Sagouis, Marten Winter. Harmonizing taxon names in biodiversity data: a review of tools, databases, and best practices. 2021.

Preprint Code Dataset Project Project DOI

David Mouillot, Nicolas Loiseau, Matthias Grenié, Adam C. Algar, Michele Allegra, Marc W. Cadotte, Nicolas Casajus, Pierre Denelle, Maya Guéguen, Anthony Maire, Brian Maitner, Brian J. McGill, Matthew McLean, Nicolas Mouquet, François Munoz, Wilfried Thuiller, Sébastien Villéger, Cyrille Violle, Arnaud Auber. The dimensionality and structure of species trait spaces. Ecol. Lett., 2021.

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

Nicolas Loiseau, Nicolas Mouquet, Nicolas Casajus, Matthias Grenié, Maya Guéguen, Brian Maitner, David Mouillot, Annette Ostling, Julien Renaud, Caroline M. Tucker, Laure Velez, Wilfried Thuiller, Cyrille Violle. Global distribution and conservation status of ecologically rare mammal and bird species. Nature Comms, 2020.

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

Matthias Grenié, Cyrille Violle, François Munoz. Is prediction of species richness from stacked species distribution models biased by habitat saturation?. Ecol. Ind., 2020.

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

Jean-Yves Barnagaud, Nathan Mazet, François Munoz, Matthias Grenié, Pierre Denelle, Mar Sobral, W. Daniel Kissling, Çağan H. Şekercioğlu, Cyrille Violle. Functional biogeography of dietary strategies in birds. GEB, 2018.

Dataset Project Project DOI:10.1111/geb.12910

Matthias Grenié, David Mouillot, Sébastien Villéger, Pierre Denelle, Caroline M. Tucker, François Munoz, Cyrille Violle. Functional rarity of coral reef fishes at the global scale: Hotspots and challenges for conservation. Biol. Cons., 2018.

PDF Project Project DOI: 10.1016/j.biocon.2018.08.011

Nina Joffard, François Massol, Matthias Grenié, Claudine Montgelard, Bertrand Schatz. Effect of pollination strategy, phylogeny and distribution on pollination niches of Euro‐Mediterranean orchids. J. Ecol., 2018.

PDF Dataset Project DOI: 10.1111/1365-2745.13013

Cyrille Violle, Wilfried Thuiller, Nicolas Mouquet, François Munoz, Nathan J.B. Kraft, Marc W. Cadotte, Stuart W. Livingstone, Matthias Grenié, David Mouillot. A Common Toolbox to Understand, Monitor or Manage Rarity? A Response to Carmona et al.. TREE, 2017.

PDF Project DOI: 10.1016/j.tree.2017.10.001

Matthias Grenié, Pierre Denelle, Caroline M. Tucker, François Munoz, Cyrille Violle. funrar: An R package to characterize functional rarity. Div. Dist., 2017.

PDF Dataset Project Project Package on GitHub Package on CRAN DOI: 10.1111/ddi.12629

R Packages

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

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

Recent & Upcoming Talks

Functional Rarity of Coral Reef Fishes Across Space

Feb 7, 2017 11:00 AM

YNHM 2017

Project

Predicting Species Richness with Unicorns & SDMs or why thresholds should be abandoned?

Jul 13, 2018 12:00 AM

Projects

Functional Diversity

Macroecology

Tools for Biodiversity Science

Teaching

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

Course name	Level	Total time
Practical session in Descriptive Statistics with R (UM)	Bachelor’s (2nd yr)	50h (2017-2018 and 2018-2019)
Practical session in Functional Biogeography with R (UM)	Master’s (2nd yr)	8h (2018-2019 and 2019-2020)
Guest Lecture on Biodiversity Facets (UL)	Master’s (1st year)	2h (2020-2021)
Practical session on Biodiversity Facets with R (UL, material)	Master’s (1st year)	6h (2020-2021)
Group project on Biodiversity Facets (UL)	Master’s (1st year)	20h (2020-2021)

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).