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cavity_expansion

This repo hosts the code for "Competence for neural crest induction is controlled by hydrostatic pressure through YAP" (Alasaadi et al., 2024).

chemokine_buffering_paper

Code for python-based quantitative image and data analysis in "Dynamic buffering of extracellular chemokine enables robust adaptation during directed tissue migration" by Wong and colleagues.

data-driven-analysis-lateralline

This repository hosts the code for "An Image-Based Data-Driven Analysis of Cellular Architecture in a Developing Tissue" (Hartmann et al., 2020).

embl-codingclub

This repo collects materials for the EMBL Coding Club.

hackday-pybioimage

Repo for UCL Festival of Code Hackday python group working on modernizing and extending the python bioimage analysis tutorial.

idr0079-hartmann-lateralline

IDR metadata for data submission accompanying "An Image-Based Data-Driven Analysis of Cellular Architecture in a Developing Tissue" by Hartmann et al.

katachi

WIP! A simplified python 3 port of the ISLA-CBE method for feature embedding of fluorescence microscopy images.

opto-notch-adaptation

This repository hosts the code for "Desensitisation of Notch signalling through dynamic adaptation in the nucleus" (Viswanathan, Hartmann et al., 2021).

python-bioimage-analysis-tutorial

A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.

python_teaching

Various bits of code from python sessions I've taught.

research-support-network.github.io

styles

Official repository for Citation Style Language (CSL) citation styles.

tissue_exploder

Create a nice exploded visualization of segmented cells in a tissue.

tracktree

Nice visualization of timecourse data obtained from tracking dividing/splitting objects.

volocityhacks

A collection of tiny tools that make the use of PE's Volocity easier.