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Supplementary Jupyter notebook to our article "Lgr5+ stem/progenitor cells reside at the apex of the embryonic hepatoblast pool"

This is a code-repository for the image-, sequencing and data-analysis performed for the manuscript: Integrated Molecular-Phenotypic Profiling Reveals Tuneable Modulators of Morphological Variation in Stembryos" authored by: Alba Villaronga Luque et al.

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"

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

Theory analysis and code for studying Drosophila wing disc eversion

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.

Similarity/Homology Assessment by Relating K-mers

This software package implements the identification of robust topological defects.

Improving contrast in confocal data by degrading image with model of light scattering

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

Repository of Code used in the Bachelor Thesis "Guanine crystal segmentation and classification imaged in the eye of zebrafish embryos"