Explore projects

Napari-stress based image analysis pipeline for measuring physical stress in 68 microscopy recordings of oil droplets embedded in liver organoids.

Sequencing analysis pipeline for our paper "Human assembloids recapitulate periportal liver tissue in vitro"

Sequencing analysis pipeline for our paper "Human liver cholangiocyte organoids capture the heterogeneity of in vivo liver ductal epithelium"

Image-based pipeline for solving inhomogeneous reaction-diffusion PDEs in real-world porous geometries. Level-set method (multi-CPU) for reconstruction. Sparse grids (multi-GPU) for diffusion simulation. Parallel data structures from OpenFPM.

PICNIC (Proteins Involved in CoNdensates In Cells) is machine learning-based model that predicts proteins involved in biomolecular condensates.

PICNIC (Proteins Involved in CoNdensates In Cells) is machine learning-based model that predicts proteins involved in biomolecular condensates.

multiparameter persistence

Similarity/Homology Assessment by Relating K-mers

Repository containing the scripts used in Iglesias-Artola et al 2024. Quantitative imaging of species-specific lipid transport in mammalian cells

This repository contains the image analysis pipelines for bile canaliculi analysis and mesenchyme counting associated with the paper "Mouse liver assembloids model periportal architecture and biliary fibrosis"