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Similarity/Homology Assessment by Relating K-mers

Completly reimplmented Lipidxplorer, with adaptation layer to read lipidxplorer1 files

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

Implementation of 2D unet. Use as base for user projects.

Henricks script as Python

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

PDE inference from limited spatio-temporal data

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

hyrdrodynamics methods for kirchhoff graphs

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

Hexagonal spring network with pores are stretched. The resulting stress profile is analyzed. The aim is to verify the hypothesis that in the Zebrafish optic cup, ECM with more pores are under more stress than ECM with less pores.

private repo with testing jupyter notebooks

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.

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

class definitions and methods for kirchhoff graphs