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Similarity/Homology Assessment by Relating K-mers

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

Completly reimplmented Lipidxplorer, with adaptation layer to read lipidxplorer1 files

PDE inference from limited spatio-temporal data

hyrdrodynamics methods for kirchhoff graphs

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.

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

private repo with testing jupyter notebooks

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

This repository is all about simulating flow driven pruning in biological flow networks.

class definitions and methods for kirchhoff graphs

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

This software package implements the identification of robust topological defects.