publications

2025

1. ORDNA: Deep-learning-based ordination for raw environmental DNA samples

   Théophile Sanchez, Steven Stalder, Letizia Lamperti, and 8 more authors

   Methods in Ecology and Evolution, 2025
2. Robot-Aided Measurement of Insect Diversity on Vegetation Using Environmental DNA

   Darina Koubı́nová, Steffen Kirchgeorg, Christian Geckeler, and 6 more authors

   Ecology and Evolution, 2025
3. Deep learning-based species-area models reveal multi-scale patterns of species richness and turnover

   Victor Boussange, Philipp Brun, Johanna T Malle, and 8 more authors

   arXiv preprint arXiv:2507.06358, 2025

2024

1. A spatial matrix factorization method to characterize ecological assemblages as a mixture of unobserved sources: An application to fish eDNA surveys

   Letizia Lamperti, Olivier François, David Mouillot, and 5 more authors

   Methods in Ecology and Evolution, 2024

2023

1. dnadna: a deep learning framework for population genetics inference

   Théophile Sanchez, Erik Madison Bray, Pierre Jobic, and 5 more authors

   Bioinformatics, 2023
2. New deep learning-based methods for visualizing ecosystem properties using environmental DNA metabarcoding data

   Letizia Lamperti, Théophile Sanchez, Sara Si Moussi, and 7 more authors

   Molecular Ecology Resources, 2023

2022

1. Reconstructing our past˸ deep learning for population genetics

   Théophile Sanchez

   Université Paris-Saclay, 2022

2021

1. Deep learning for population size history inference: Design, comparison and combination with approximate Bayesian computation

   Théophile Sanchez, Jean Cury, Guillaume Charpiat, and 1 more author

   Molecular Ecology Resources, 2021

2019

1. Let’s Listen to the Data: Sonification for Learning Analytics

   Eric Sanchez and Théophile Sanchez

   In Advances in Quantitative Ethnography: First International Conference, ICQE 2019, Madison, WI, USA, October 20–22, 2019, Proceedings 1, 2019