Explore projects

An R package for specifying and extracting data frames ready for data analysis from populations of MR images.

Flexible and extensible framework that integrates state-of-the-art methods for graph partitioning and sparse matrix ordering.

C++ software for generating configurations of a molecular system (coordinates and velocities) distributed according to the QSD (Quasi Stationary Distribution) within a user defined metastable state.

Eye-movement analysis with hidden semi-Markov models to segment phases in reading tasks

Crash data analysis with hidden Markov random fields with Bayesian Nonparametric priors.

Scripts to prepare and clean corpora.

Visualize, track and cluster genes based on their expression, intron retention and splicing profile during the Zebrafish development!

CHEPIN simulation's code

An R package to process and compare 3D binary/labeled masks

Nonlinear mixed-effects modeling and machine learning for oncology

Supplementary datasets and codes for the manuscript "Implication of lipid turnover for the control of energy balance", S. Bernard and K.L. Spalding

This project contains:

a mathematical implementation of the carbohydrate-insulin model (CIM) and an energy-in, energy-out version of the energy-balance model (EBM-IOM) with a component for lipid turnover dynamics.

virtual clinical cohort datasets

numerical simulation results

script files to reproduce numerical simulations

a script file to generate manuscript figures

Python/R code and Jupyter notebooks accompanying the manuscript, entitled "Single-cell genomics of the mouse olfactory cortex reveals contrasts with neocortex and ancestral signatures of cell type evolution".

See the publication in Nature Neuroscience: https://doi.org/10.1038/s41593-025-01924-3 and its bioRxiv version: https://doi.org/10.1101/2023.08.13.553130