I am working in CNRS @ Biometry and Evolutionary Biology Lab. With a background in mathematics and computer science, I am involved in projects in ecology, on two main axes :

- ecological networks : analysing original datasets, proposing new methodological developments and helping non specialists (see this "quick tips" paper) ;

- image, ecology & deep learning : as a leader of the imaginecology initiative (see imaginecology website), developping computer vision pipelines and sharing knowledge with other ecologists.


SELECTED WORK

Projet JENGA

Projet DeepFaune

 

 

 

For a complete list, I am almost 100% degooglized, but you can still have a look at my scholar profile.

 

  • Noa Rigoudy, the DeepFaune consortium, Bruno Spataro, Vincent Miele, Simon Chamaillé-Jammes, The DeepFaune initiative: a collaborative effort towards the automatic identification of the French fauna in camera-trap images, Preprint bioRxiv (2022)

  • Vincent Miele, Stéphane Dray et Olivier Gimenez, Images, écologie et deep learning, Regards sur la biodiversité, Société Française d’Écologie et d’Évolution (2021)
  • Vincent Miele, Gaspard Dussert, Bruno Spataro, Simon Chamaillé-Jammes, Dominique Allainé & Christophe Bonenfant, Revisiting giraffe photo-identification using deep learning and network analysis. Methods in Ecology and Evolution (2021) Preprint bioRxiv / Media coverage : France 3, RFI
  • Christophe Botella, Stéphane Dray, Catherine Matias, Vincent Miele, Wilfried Thuiller, An appraisal of graph embeddings for comparing trophic network architectures. Methods in Ecology and Evolution (2021)
  • Vincent Miele, Catherine Matias, Marc Ohlmann, Giovanni Poggiato, Stéphane Dray, Wilfried Thuiller, Quantifying the overall effect of biotic interactions on species communities along environmental gradients. Preprint HAL (2021)
  • Vincent Miele, Catherine Matias, Stéphane Robin & Stéphane Dray, Nine Quick Tips for Analyzing Network Data. PLoS Comp. Biology (2019)
  • Catherine Matias & Vincent Miele, Statistical clustering of temporal networks through dynamic a stochastic block model. Journal of the Royal Statistical Society : Series B (2016) Arxiv

 

 

- Project member :

  • ANR FuturePred 2019-2022
  • ANR Horizon 2018-2022
  • ANR Colib’read 2012-2016
  • ANR Ancestrome 2011-2016
  • ANR NeMo 2007-2011

- Board member

 

- Reviewer :

- Jury member :

  • INRA IRE01, 2022 (président)
  • HCERES MISTEA, 2020
  • INRA IRE01, 2018 (président)
  • UGA IGE, 2017
  • CNRS IR43, 2017
  • INRA CEI, 2017
  • CNRS IE 13INSMI03, 2013
  • INRA IRE12, 2012
  • INRA IRE05, 2011
  • INRA IRE01, 2009
  • CNRS IE 155, 2008

- Organizing commitee :

  • CEMRACS, Méthodes numériques et algorithmes pour architectures hautes performances, Summer 2012 (le reportage de France3 ici)
  • Journées du groupe Calcul , November 2010.
  • Le coté Calcul de Jobim , June 2009.
  • Mathematics for Biological Networks , December 2007
  • European Conference on Computational Biology, September 2003

 

Here  (c)  means "co-supervision"

  • Elias Chetouane, M2 Informatique et Données,  Deep learning for camera traps, 2022
  • Marine Desprez (c) , Post Doc, Machine learning in ecology, 2022
  • Bastien Payre, M2 Maths en action, Deep learning et séquences d'images, 2021
  • Nathan Levray, M2 Maths en action, Higher order networks, 2021
  • Noa Rigoudy (c), ENS Lyon, Deep learning for camera traps, 2021
  • Julien Bonnier (c), M2 BEE, reconnaissance des pollens, 2021
  • Giusseppe Capizzi, M2 Data Science, Machine learning for botanics, 2020-21
  • Christophe Botella (c), Post Doc, Graph embeddings, 2020-21
  • Thibault Genissel (c), ENS Lyon, Réseaux de contact entre ongulés, 2020
  • Gaspard Dussert, ENSTA, imaginecology, 2019
  • Claire Gayral, M2 Maths en action, Algorithme EM classifiant dans dynSBM, 2018
  • Gonché Danesh (c), M2 Bioinformatique, Simulation de HTT, 2017
  • Florent Tessier, M2 Bioinformatique, Génomique comparative du manchot, 2015
  • Mamadou Dione, M2 Mathématiques, Etude de la température corporelle des marmottes en lien avec les conditions climatiques, 2014
  • Camille Marchet (c), Software Engineer INRIA Bamboo, 2013-2014
  • Thomas Bigot (c), Software Engineer ANR Ancestrome, 2013-2015
  • Mathilde Boutigny, M1 Ingénieur, Développement du package kissplice2reftranscriptome, 2014
  • Alice Julien (c), Software Engineer INRIA Bamboo, 2012-2013
  • Patrick Tran Van, L3 UCBL, Intégration de programmes de calcul dédiés aux NGS dans le système GALAXY, 2012
  • Vincent Lanore, M1 ENS Info, Hybrid parallel computing applied to DNA processing, 2011
  • Aurélie Siberchicot (c), CDD ANR, 2010-11 (C++ development manager)
  • Marie Jorandon, M1 INAPG, Etude statistique de données NGS sur l’espacement des nucléosomes, 2009
  • Laurent Modolo, L3 UCBL Bio, Packaging d’une application de recherche de motifs, 2008

 

 

  • deepfaune  Automatic identification of the French fauna in camera-trap images
    Collaboration with Simon Chamaillé-Jammes et Bruno Spataro

 

  • econetwork A collection of advanced tools, methods and models for the analysis of ecological networks,
    Collaboration with EcoNet group
  • queyras A minimal deep learning image classifier, implemented in the french Alps with R and Keras
  • dynsbm Dynamic stochastic block models,
    Collaboration with C.Matias
  • HiFiX + SiLiX Ultra-fast + High Fidelity Clustering of sequences,
    efficent parallel algorithms + network science.
    Collaboration with L.Duret, D.Kahn, V.Daubin & S.Penel

 

 

 

Ingénieur Mathematics and Modelling - Polytech Clermond-Ferrand

Master Applied Mathematics - University of Clermont Auvergne

 

 

 

Publications

Display of 1 to 30 publications on 48 in total