Olivier Gimenez 🦦
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oaggimenez.bsky.social
Olivier Gimenez 🦦
@oaggimenez.bsky.social
4.3K followers 3.5K following 98 posts
Scientist (he/him) @cnrs.bsky.social https://oliviergimenez.github.io/

Grown statistician • Improvised ecologist • Sociologist apprentice

Statistical ecology • Bayesian statistics • Mammals

#rstats
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oaggimenez.bsky.social
🌿 Le Centre d’Écologie Fonctionnelle et Évolutive à Montpellier (lnkd.in/erpreW-F), recherche sa/son DU 😉
👉 lnkd.in/etM5tXEP

🌿 The Centre for Functional and Evolutionary Ecology in Montpellier (lnkd.in/e9JBQNai) is looking for its next director. Come and join us 😉
👉 lnkd.in/etM5tXEP
September 12, 2025 at 11:35 AM
oaggimenez.bsky.social
🌿🤝 Excited to launch BRAM - Biodiversity, Research & Mediation in Montpellier!

🎯 This new consortium unites research, local authorities & biodiversity managers to co-create projects where science meets society.

🦦🌃 From species management to urban nature and ecological connectivity.
Anne Bancel & Jean-Christophe Avarre (IRD), Pierre-Edouard Guillain (OFB), Isabelle Touzart (Montpellier Méditerranée Métropole), Stéphane Jouault (ville de Montpellier), Philippe Augé (Montpellier university), Laurent Barbieri (CNRS) Group picture
September 2, 2025 at 7:32 AM
oaggimenez.bsky.social
I talk to lots of junior colleagues about this stuff. They want a lot of different things. But mostly they want more senior academics to recognize and talk about these problems. It’s not like it’s a secret that there are replication and reliability problems at the highest levels of research. It’s that the most successful academics talk about it the least. Recognition would help not only with morale, but also with momentum to get things done.
July 10, 2025 at 4:39 AM
oaggimenez.bsky.social
🚨 Candidatez à la thèse sur "Déterminants géographiques, sociaux et culturels des risques liés aux interactions entre humains et ragondins" 🥳

➡️ Tous les détails ici lnkd.in/exsXZRHS

📩 Envoyez CV et lettre de motiv à avant ce vendredi 27 juin 🤯

ℹ️ A propos du projet LeptoNex : lnkd.in/e7rhyyBS
June 23, 2025 at 6:25 AM
oaggimenez.bsky.social
Intermediate-levelworkshop Bayesian population analysis using NIMBLE and JAGS 🇨🇭
Intermediate-levelworkshop Bayesian population analysis using NIMBLE and JAGS In the course we introduce many key models used in the analysis of distribution, abundance and animal demography, as well as their spatial and temporal patterns, in a Bayesian analysis framework. In concept, we follow the book "Bayesian population analysis using WinBUGS" (Academic Press, 2012), which will be handed out for free. We introduce statistical inference and computation, and use the programs R and NIMBLE (and occasionally JAGS) to fit and understand some of the most widely used models for the analysis of animal and plant populations. Models and topics include:
June 12, 2025 at 4:25 PM
oaggimenez.bsky.social
Today is #InternationalLynxDay, and we've just had this paper published in @peercomjournal.bsky.social "Modelling Eurasian lynx populations in Western Europe: What prospects for the next 50 years?" led by Sarah Bauduin 🥳

peercommunityjournal.org/articles/10....
cover page of our new paper on "Modelling Eurasian lynx populations in Western Europe: What prospects for the next 50 years?". The abstract is: "Persistence of populations may be uncertain for large carnivore species, especially for those established in human-dominated landscapes. Here, we studied the Eurasian lynx in Western Europe established in the Upper Rhine meta-population (i.e., Jura, Vosges-Palatinian and Black Forest populations) and the Alpine population. These populations are currently considered endangered or critically endangered due to high anthropogenic mortality, small population size and low genetic diversity, and isolation. We assessed lynx persistence over a 50-year time horizon by implementing a spatially-explicit individual- based model, while accounting for road mortality and habitat selection. Forecasts showed a steady growth rapidly reaching a more stable phase for the Alpine and Jura populations, and a more hetero- geneous positive growth with less precision for the Vosges-Palatinian and Black Forest populations. Exchanges of individuals between populations were limited, the Jura population playing the role of a crossroad. Finally, the persistence of lynx in Western Europe seems likely on a large scale over the next 50 years. Indeed, simulations showed high female occupancy as well as average lynx density over the core areas of the four studied populations. Nevertheless, these results should be interpreted with the model limitations in mind, concerning the absence of movement barriers and inbreeding depression."
June 11, 2025 at 11:14 AM
oaggimenez.bsky.social
🐺📈 Avec @milleretcyril.bsky.social et Christophe Duchamp, nous venons de mettre à jour les estimations de survie et effectifs de la population de loups en France pour l'hiver 2023/2024, tout est là hal.science/hal-05016361v1

@ofbiodiversite.bsky.social @cnrsecologie.bsky.social
Variations da la probabilité de survie lors de 3 périodes (1995-2013 ; 2014-2018 ; 2019-2024). Les barres représentent les bornes hautes et basses de l’intervalle de confiance à 95%, et la barre horizontale noire, les estimations moyennes. Le seuil de tolérance moyen est de 34% de mortalité (soit 66% de survie) est donné (pointille rouge) avec son intervalle de confiance (en grisé ; Marescot et al. 2012). Des taux des survies en dessous de cet intervalle présentent donc un risque important de générer des taux de croissance négatifs de la population (selon Marescot et al. 2012). Les taux de survie sont présentés après avoir pris en compte l’effet transient sur la survie (Pradel et al. 1997). Tendance démographique de la population de loups en France estimée par modèles de capture recapture et à partir du suivi génétique non-invasif. Les barres représentent les estimations basses et hautes des intervalles de confiance à 95% des effectifs chaque hiver depuis 1995/96. La valeur moyenne des estimations est représentée par une barre horizontale blanche. Les valeurs utilisées dans cette figure sont disponibles dans le Tableau S1.
April 16, 2025 at 4:14 AM
oaggimenez.bsky.social
🚨🎉 New paper "Ten quick tips to get you started with Bayesian statistics", hope you'll like it 😇🤗

✍🏽 w/ Andy Royle, Marc Kéry and Chloé Nater

🔗 dx.plos.org/10.1371/jour...

@plos.org @cnrsecologie.bsky.social @cnrsoccitanieest.bsky.social @umontpellier.bsky.social
Graphical summary of 10 quick tips to get started with Bayesian statistics and how they fit into a larger view of an analytical workflow with Bayesian models.
April 11, 2025 at 4:23 AM
oaggimenez.bsky.social
www.biorxiv.org/content/10.1... @doctorzen.net
Cover page of the preprint "Trends in hoaxes of academic communication" in Biorxiv with following abstract: "Academic journals use peer review to weed out false information, but peer review and other editorial processes are normally confidential. Therefore, individuals sometimes create hoaxes to test whether editorial processes are as robust as they are claimed, or whether they are done at all. This article tracks the occurrence of hoaxes aimed at scholarly publishers and academic conferences since 2000. Since 2009, successful hoaxes usually appeared at a year of one or more a year, usually motivated by academics or journalists exposing so-called "predatory" journals. The apparent rise in the number of hoaxes reflects a lack of transparency in editorial processes at both legitimate and "predatory" journals. Reaction of academic communities to hoaxes varies widely depending on the perceived intent of the target of the hoaxes and whether the hoax demonstrates what the hoaxer claims."
December 17, 2024 at 8:19 PM
oaggimenez.bsky.social
I have a new paper 😇 in which I show how to analyse data collected on stream networks using occupancy models, check it out here onlinelibrary.wiley.com/doi/10.1002/... 😉 I also have a few slides there that give additional explanations doi.org/10.6084/m9.f...
Cover page of the paper entitled "Spatial Occupancy Models for Data Collected on Stream Networks" published in the journal Aquatic Conservation: Marine and Freshwater Ecosystems. The abstract is: 1. To effectively monitor biodiversity in streams and rivers, we need to quantify species distribution accurately. 2. Occupancy models are useful for distinguishing between the non-detection of a species and its actual absence. While these models can account for spatial autocorrelation, they are not suited for streams and rivers due to their unique network spatial structure. 3. Here, I propose spatial occupancy models specifically designed for data collected on stream and river networks. I present the statistical developments and illustrate their application using data on a semi-aquatic mammal. 4. Overall, spatial stream network occupancy models offer a robust method for assessing biodiversity in freshwater ecosystems. A figure showing the importance to account for stream distance and flow connectivity when analysing data on stream networks. Four sites are represented on a river, two sites are flow connected and two are flow unconnected.
November 20, 2024 at 3:19 PM
oaggimenez.bsky.social
I’m learning Julia and oh my it is a mighty tool for scientists! I'm using diff eqns to fit models to data. Here are examples from others incl logistic, Lotka-Volterra & reaction-diffusion.

t.co/vcGBzGjuwF

🙏 C Rackauckas, L Roques, J Papaïx, S Soubeyrand, H Ge, L Mailleret, L Marques & al
Trace and density plots of the three main parameters of a logistic model fitted to noisy (simulated) data. Simulated and MCMC-estimated trajectories from a logistic model.
December 30, 2023 at 2:13 PM
oaggimenez.bsky.social
Un point d'étape sur nos projets sur la loutre d'Europe. J'y parle de connectivité, trame turquoise, pièges photos, ADN env, cacas, représentations des usagers et médiation scientifique. Et de caca, j'ai déjà dit caca?

diapos doi.org/10.6084/m9.f...
vidéo youtu.be/7pVFJgw2EhU?...

📸 Yann Raulet
Diapo de présentation de nos projets sur la loutre, le Lez, la connectivité écologique et la médiation scientifique.
December 11, 2023 at 8:03 AM
oaggimenez.bsky.social
Merci Instant Science pour la petite attention, on se voit l'année prochaine, pour la 2ème édition du Festival des sciences participatives et citoyennes #VaSavoir ?!
carte postale envoyée par les collègues d'Instant Science nous remerciant de notre participation au premier festival des sciences participatives et citoyennes VaSavoir. Portrait de la team loutre avec de gauche à droite, Yann Raulet, Olivier Gimenez et Simon Lacombe.
December 6, 2023 at 11:02 AM
oaggimenez.bsky.social
Curious too. Marie Chandelier is a researcher in linguistics, and brings a qualitative approach which helps a lot to put the results from the quantitative approach into perspective. This transpires even more in this paper

oliviergimenez.github.io/pubs/Chandel...
cover page of paper "Content analysis of newspaper coverage of wolf recolonization in France using structural topic modeling" by Marie Chandelier and colleagues.
December 3, 2023 at 8:00 PM
oaggimenez.bsky.social
Awesome paper led by Gilles Maurer & Marie Chandelier on the media coverage of the Asian elephant using topic modelling and linguistics 🐘📰

Free PDF here authors.elsevier.com/sd/article/S...
cover page of paper Polarized media coverage of conflicting, yet emblematic species: The ambivalent portrayal of the Asian elephant Fig. 2. Social network analysis of topics and their co-occurrence in the corpus. Topics are defined by their numbers shown in the main graph and the insert for few topics of specific interest. Topic's most probable stems are displayed within the network nodes. Communities of topics are shown in colours and based on modularity partition. 2.b: The insert is showing the eigenvector centrality value for each topic of the network. The colour gradient depends on the eigenvector centrality value.
December 3, 2023 at 7:17 PM
oaggimenez.bsky.social
Petit exposé sur les modèles et leurs applications en écologie à l'occasion d'un atelier d'échanges Modélisations « Biodiversité et Infrastructures Linéaires de Transport » organisé par le Cerema, l’OFB, le centre de ressources TVB et ITTECOP.

doi.org/10.6084/m9.f...
Diapo de couverture d'un exposé sur les modèles et leurs applications
November 28, 2023 at 12:23 PM
oaggimenez.bsky.social
Et hop, un petit article dans l'écho du PNA loutre sur notre projet OtterConnect otterconnect.netlify.app

C'est par ici sfepm.org/sites/default/
October 25, 2023 at 12:00 PM
oaggimenez.bsky.social
📢 Ne ratez pas le festival Va Savoir?! sur les sciences participatives & citoyennes 27-28-29 octobre à La Halle Tropisme 🤩

On y sera pour parler du retour de la loutre à Montpellier et ailleurs otterconnect.netlify.app 🦦😇

👉 www.instantscience.fr/festival-va-...

#VaSavoir #SciencesParticipatives
bannière du festival Va Savoir
October 21, 2023 at 3:32 PM
oaggimenez.bsky.social
10-14 June 2024 5-day workshop on "Modeling distribution, abundance, demography and population dynamics using R, JAGS and NIMBLE" at the Spanish Game Research Center (IREC) in Ciudad Real 🇪🇸 by M. Kéry M. Schaub @GGuillera @jj_lahoz M. Victoria Jiménez-Franco J. Jiménez 🤩
October 6, 2023 at 10:07 AM
oaggimenez.bsky.social
Interested in landscape connectivity? Circuit theory is great but how to use it w/ spatial occupancy models? No problem, Maelis Kervellec got you covered in her new paper 🤩🥳 NIMBLE for the win 😉

biorxiv.org/content/10.1...

w/ Thibaut Couturier & colleagues from Office Français de la Biodiversité
Distribution of sampling sites for the two case studies in France. On the top panels, black crosses symbolize the center of 300m transect monitoring otter spaint in the Massif Central, background raster represents the median posterior cost value estimated from the distance to rivers (a) and corresponding standard deviation (b). On the bottom panels, 100km2 squares delineate sampling sites of lynx presence in the Jura mountains, background raster represents the median posterior cost value estimated from the distance to highways (c) and corresponding standard deviation (d).
September 30, 2023 at 9:46 AM
oaggimenez.bsky.social
Hi everyone ! I'm Olivier, a statistician turned ecologist or ecological statistician. I study carnivores asking basic questions like how many and where. You can find me in the beautiful city of Montpellier, southern France. Thanks David !
Cover page of the OtterConnect project website, an applied research project to better understand otter recolonization
September 26, 2023 at 7:45 PM