GitLab

3day Image analysis course given externally in 2020-12.

scripts related to the publication

Exploring cellpose (deep learning) for segmentation in 2D&3D. Including setup for GPU on cluster or workstation

Quantitative analysis of diacylglycerol signaling kinetics in single cells

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"

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

Slicing lc ms data into time ... slices, to run lipidxplorer on the slices

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

lipid lipid correlation network using pearson correlation + hierarchical clustering based on cosine sim drawing network using gml

Generate MFQL files automagically

Scripts written for the paper: "Asymmetric neurogenic commitment of retinal progenitors involves Notch through the endocytic pathway"