Un problème d'optimisation des apports en eau pour la croissance des plantes dans le modèle GreenLab. - Lin Wu 005; Philippe de Reffye; Bao-Gang Hu; François-Xavier Le Dimet; Paul-Henry Cournède (ARIMA J., 2005)

A dynamical model of plant growth with full retroaction between organogenesis and photosynthesis. - Amélie Rostand-Mathieu; Paul-Henry Cournède; Philippe de Reffye (ARIMA J., 2006)

Structural Factorization of Plants to Compute Their Functional and Architectural Growth. - Paul-Henry Cournède; Meng-Zhen Kang; Amélie Mathieu; Jean François Barczi; Hong-Pin Yan; Bao-Gang Hu; Philippe de Reffye (Simul., 2006)

Simulation and Visualisation of Functional Landscapes: Effects of the Water Resource Competition Between Plants. - Vincent Le Chevalier; Marc Jaeger 002; Xing Mei; Paul-Henry Cournède (J. Comput. Sci. Technol., 2007)

Structural identifiability of generalized constraint neural network models for nonlinear regression. - Shuang-Hong Yang; Bao-Gang Hu; Paul-Henry Cournède (Neurocomputing, 2008)

Analytical study of a stochastic plant growth model: Application to the GreenLab model. - Meng-Zhen Kang; Paul-Henry Cournède; Philippe de Reffye; D. Auclair; Bao-Gang Hu (Math. Comput. Simul., 2008)

An optimal control methodology for plant growth - Case study of a water supply problem of sunflower. - Lin Wu 005; François-Xavier Le Dimet; Philippe de Reffye; Bao-Gang Hu; Paul-Henry Cournède; Meng-Zhen Kang (Math. Comput. Simul., 2012)

An efficient computational method for global sensitivity analysis and its application to tree growth modelling. - Qiongli Wu; Paul-Henry Cournède; Amélie Mathieu (Reliab. Eng. Syst. Saf., 2012)

Iterative convolution particle filtering for nonlinear parameter estimation and data assimilation with application to crop yield prediction. - Yuting Chen; Samis Trevezas; Paul-Henry Cournède (SIAM Conf. on Control and its Applications, 2013)

Optimal Control of Crop Irrigation based on the Hamilton-Jacobi-Bellman Equation. - Jacques Ramanathan; Yuting Chen; Paul-Henry Cournède (SIAM Conf. on Control and its Applications, 2013)

Towards an EDSL to Enhance Good Modelling Practice for Non-linear Stochastic Discrete Dynamical Models - Application to Plant Growth Models. - Benoit Bayol; Yuting Chen; Paul-Henry Cournède (SIMULTECH, 2013)

Parallel Graph Grammars with Instantiation Rules Allow Efficient Structural Factorization of Virtual Vegetation. - Katarína Smolenová; Winfried Kurth; Paul-Henry Cournède (Electron. Commun. Eur. Assoc. Softw. Sci. Technol., 2013)

A Symbolic Method to Analyse Patterns in Plant Structure. - Cedric Loi; Paul-Henry Cournède; Jean Françon (Comb. Probab. Comput., 2014)

Parameter estimation via stochastic variants of the ECM algorithm with applications to plant growth modeling. - Samis Trevezas; Sonia Malefaki; Paul-Henry Cournède (Comput. Stat. Data Anal., 2014)

Model-Based Analysis-Synthesis for Realistic Tree Reconstruction and Growth Simulation. - Corina Iovan; Paul-Henry Cournède; Thomas Guyard; Benoit Bayol; Didier Boldo; Matthieu Cord (IEEE Trans. Geosci. Remote. Sens., 2014)

WIP - Promoting good modeling practice with a domain-specific language and statistical algorithms designed for parallel computing. - Benoit Bayol; Yuting Chen; Charlotte Baey; Gautier Viaud; Paul-Henry Cournède (SpringSim (TMS-DEVS), 2015)

A comparison of a generic MCMC-based algorithm for Bayesian estimation in C++, R and Julia: application to plant growth modeling. - Gautier Viaud; Yuting Chen; Benoit Bayol; Paul-Henry Cournède (SpringSim (ANSS), 2015)

Learning from User Workflows for the Characterization and Prediction of Software Crashes. - Chloé Adam; Antoine Aliotti; Paul-Henry Cournède (ICDM Workshops, 2016)

Bayesian parameter estimation for the Wnt pathway: an infinite mixture models approach. - Konstantinos Koutroumpas; Paolo Ballarini; Irene Votsi; Paul-Henry Cournède (Bioinform., 2016)

Reconstructing minimal length tree branch systems from leaf positions. - Robert Beyer; Dominik Bayer; Hans Pretzsch; Paul-Henry Cournède (Ecol. Informatics, 2017)

Reachability Design Through Approximate Bayesian Computation. - Mahmoud Bentriou; Paolo Ballarini; Paul-Henry Cournède (CMSB, 2019)

Asymptotic distribution of likelihood ratio test statistics for variance components in nonlinear mixed effects models. - Charlotte Baey; Paul-Henry Cournède; Estelle Kuhn (Comput. Stat. Data Anal., 2019)

Combining Similarity and Adversarial Learning to Generate Visual Explanation: Application to Medical Image Classification. - Martin Charachon; Céline Hudelot; Paul-Henry Cournède; Camille Ruppli; Roberto Ardon (ICPR, 2020)

On the Use of Neural Networks with Censored Time-to-Event Data. - Elvire Roblin; Paul-Henry Cournède; Stefan Michiels (ISMCO, 2020)

Dynamic monitoring of software use with recurrent neural networks. - Chloé Adam; Antoine Aliotti; Fragkiskos D. Malliaros; Paul-Henry Cournède (Data Knowl. Eng., 2020)

Neural Networks to Predict Survival from RNA-seq Data in Oncology. - Mathilde Sautreuil; Sarah Lemler; Paul-Henry Cournède (CMSB, 2021)

Visual Explanation by Unifying Adversarial Generation and Feature Importance Attributions. - Martin Charachon; Paul-Henry Cournède; Céline Hudelot; Roberto Ardon (iMIMIC/TDA4MedicalData@MICCAI, 2021)

Automaton-ABC: A statistical method to estimate the probability of spatio-temporal properties for parametric Markov population models. - Mahmoud Bentriou; Paolo Ballarini; Paul-Henry Cournède (Theor. Comput. Sci., 2021)

Hyper-AdaC: Adaptive clustering-based hypergraph representation of whole slide images for survival analysis. - Hakim Benkirane; Maria Vakalopoulou; Stergios Christodoulidis; Ingrid-Judith Garberis; Stefan Michiels; Paul-Henry Cournède (ML4H@NeurIPS, 2022)

Interpretable cytometry cell-type annotation with flow-based deep generative models. - Quentin Blampey; Nadège Bercovici; Charles-Antoine Dutertre; Isabelle Pic; Fabrice André; Joana Mourato Ribeiro; Paul-Henry Cournède (CoRR, 2022)

Leveraging conditional generative models in a general explanation framework of classifier decisions. - Martin Charachon; Paul-Henry Cournède; Céline Hudelot; Roberto Ardon (Future Gener. Comput. Syst., 2022)

Representation Learning for the Clustering of Multi-Omics Data. - Gautier Viaud; Prasanna Mayilvahanan; Paul-Henry Cournède (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

A Formal Approach for Tuning Stochastic Oscillators. - Paolo Ballarini; Mahmoud Bentriou; Paul-Henry Cournède (CMSB, 2023)

Spatio-Temporal Analysis of Patient-Derived Organoid Videos Using Deep Learning for the Prediction of Drug Efficacy. - Leo Fillioux; Emilie Gontran; Jérôme Cartry; Jacques RR Mathieu; Sabrina Bedja; Alice Boilève; Paul-Henry Cournède; Fanny Jaulin; Stergios Christodoulidis; Maria Vakalopoulou (ICCV (Workshops), 2023)

Structured State Space Models for Multiple Instance Learning in Digital Pathology. - Leo Fillioux; Joseph Boyd; Maria Vakalopoulou; Paul-Henry Cournède; Stergios Christodoulidis (MICCAI (1), 2023)

Causal Dynamic Variational Autoencoder for Counterfactual Regression in Longitudinal Data. - Mouad El Bouchattaoui; Myriam Tami; Benoit Lepetit; Paul-Henry Cournède (CoRR, 2023)

CustOmics: A versatile deep-learning based strategy for multi-omics integration. - Hakim Benkirane; Yoann Pradat; Stefan Michiels; Paul-Henry Cournède (PLoS Comput. Biol., 2023)

A biology-driven deep generative model for cell-type annotation in cytometry. - Quentin Blampey; Nadège Bercovici; Charles-Antoine Dutertre; Isabelle Pic; Joana Mourato Ribeiro; Fabrice André; Paul-Henry Cournède (Briefings Bioinform., 2023)

Radiotherapy Dose Optimization via Clinical Knowledge Based Reinforcement Learning. - Paul Dubois; Paul-Henry Cournède; Nikos Paragios; Pascal Fenoglietto (AIME (1), 2024)

BulkRNABert: Cancer prognosis from bulk RNA-seq based language models. - Maxence Gélard; Guillaume Richard; Thomas Pierrot; Paul-Henry Cournède (ML4H@NeurIPS, 2024)

Causal Contrastive Learning for Counterfactual Regression Over Time. - Mouad El Bouchattaoui; Myriam Tami; Benoit Lepetit; Paul-Henry Cournède (NeurIPS, 2024)

Are foundation models for computer vision good conformal predictors? - Leo Fillioux; Julio Silva-Rodríguez; Ismail Ben Ayed; Paul-Henry Cournède; Maria Vakalopoulou; Stergios Christodoulidis; Jose Dolz (CoRR, 2024)

A novel batch-effect correction method for scRNA-seq data based on Adversarial Information Factorization. - Lily Monnier; Paul-Henry Cournède (PLoS Comput. Biol., 2024)

Full Conformal Adaptation of Medical Vision-Language Models. - Julio Silva-Rodríguez; Leo Fillioux; Paul-Henry Cournède; Maria Vakalopoulou; Stergios Christodoulidis; Ismail Ben Ayed; Jose Dolz (IPMI (2), 2025)