Explore projects

Image analysis course (20h): Concepts and hands-on with Fiji and Ilastik.

Particle filter tracking toolkit/framework for the popular free image processing software ImageJ.

A test repository for teaching

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

Implementation of the fast curvature filters for images.

pSSAlib: Stochastic chemical network and reaction-diffusion simulation

Project to quantify and measure orientation of network branches in regards to Ch iMap

hidra fork, intended to exist until desy's hidra goes full open source on github or similar

Complementary information concerning the article: "A 3D system to model human pancreas development and its reference single cell transcriptome atlas reveal signaling pathways required for progenitor expansion"

Segmentation of the basal cell-matrix contact sites on laminin structure

This is a python implementation of the cycle coalescence algorithm as described by Modes et al, 2016.

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

Analysis of ARE in liver tissue. with Julien Delpierre

New analyses for the "Navigating Uncertainty in Encoded Decision-Space" project. Analysis for both "Fruit Task" and "Hexagons Task."