Explore projects

this repository contains Fiji scripts associated with the paper : Stefan et al., Quantitative analysis of native lipid dynamics and lipid protein interactions in living cells

Variant Effect Predictor (VEP) for missense variants in clinically actionable genes (ACMG SF v2.0).

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

Analysis of ARE in liver tissue. with Julien Delpierre

Complementary information to the image analysis script described in the paper "Salamander Eci: an optical clearing protocol for the three-dimensional exploration of regeneration".

Basic code to perform inPhase, a method to determine dilute and condensed phase concentrations of protein condensates.

Henricks script as Python

real-time in-situ visualization of distributed numerical simulations

Geometric computation benchmarks with classic numerical schemes for comparison with Global Polynomial Level Set method.

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.

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

Library for producing and processing on the Adaptive Particle Representation (APR)

openfpm_pdata