Deep Learning Systems for Biomedical Imaging
Research Software Engineer @ Institut Cochin · CNRS · France BioImaging (2024–2026)
MSc Bioinformatics @ Université Paris Cité
Paris, France

profile = {
    "role": "Research Software Engineer · ML Systems · Computer Vision" ,
    "focus": ["Computer Vision", "ML Integration", "3D Image Analysis", "Biomedical Imaging"],
    "status": "Open to Research Software Engineer · Computer Vision · Biomedical Imaging · ML Systems roles · Paris / EU (2026+)",
}

I build software systems for biomedical image analysis, enabling large-scale processing and interactive visualization of 3D biological data used daily by researchers on a national imaging infrastructure.

My work sits at the intersection of software engineering and bioimaging, where I integrate computer vision and machine learning methods into production systems rather than standalone research prototypes.

My edge: I write production code and understand the biology behind the data.

OpenCID (Cochin Image Database) is an open-source biomedical imaging platform run by IMAG'IC, part of France BioImaging.
Storage, processing, visualization and FAIR sharing of scientific imaging data, registered as a research infrastructure (DOI 10.57889/cid).
Poster 2025

Deep Learning & Computer Vision

Scientific Imaging & Bioimage Analysis
Cellpose · StarDist · Ilastik · Huygens · QuPath · ImageJ/Fiji · Bio-Formats · DICOM · OME-TIFF · OME-ZARR

Bioinformatics · Single-Cell · Multi-Omics

BioPython · Scanpy · AnnData · Seurat · DESeq2 · limma · Bioconductor · ComplexHeatmap · fgsea · MODELLER
scRNA-seq · spatial transcriptomics · multi-omics · Matplotlib · Plotly · ggplot2

Software Engineering & Infrastructure

Selected research and engineering projects in biomedical imaging, ML systems, and computational biology.

Interactive web platform for visualization, exploration and analysis of large-scale OME-Zarr biomedical imaging datasets. Multiscale rendering · efficient chunk streaming · annotations · microscopy workflows TypeScript · React · OME-Zarr · WebGL · Three.js

Deep learning pipeline for mammography screening on DICOM data.
Multi-model ensemble (EfficientNet, ConvNext) · medical windowing · class imbalance strategies
PyTorch · pydicom · scikit-image

Protein structure recognition via sequence-structure alignment using double dynamic programming.
Modular architecture (9 core modules) · orchestration pipeline · tested
Python · BioPython

Molecular energy minimization via steepest descent — analytical & numerical gradient approaches.
3D structure visualization · VMD trajectory generation · PDB parsing
Python · NumPy · Matplotlib

Always happy to connect, exchange ideas, or just talk science and code.