WhoIsJack
Systems biologist studying the principles of self-organization at the interface of cell and developmental biology.
University College LondonLondon, United Kingdom
Pinned Repositories
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.
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 Slightly outdated but still much liked by learners.
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.
WhoIsJack's Repositories
WhoIsJack/python-bioimage-analysis-tutorial
A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.
WhoIsJack/tissue_exploder
Create a nice exploded visualization of segmented cells in a tissue.
WhoIsJack/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).
WhoIsJack/TrackTree
Nice visualization of timecourse data obtained from tracking dividing/splitting objects.
WhoIsJack/EMBL-CodingClub
This repo collects materials for the EMBL Coding Club.
WhoIsJack/cavity_expansion
This repo hosts the code for "Competence for neural crest induction is controlled by hydrostatic pressure through YAP" (Alasaadi et al., 2024).
WhoIsJack/hackday-pybioimage
Repo for UCL Festival of Code Hackday python group working on modernizing and extending the python bioimage analysis tutorial.
WhoIsJack/katachi
WIP! A simplified python 3 port of the ISLA-CBE method for feature embedding of fluorescence microscopy images.
WhoIsJack/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.
WhoIsJack/opto-notch-adaptation
This repository hosts the code for "Desensitisation of Notch signalling through dynamic adaptation in the nucleus" (Viswanathan, Hartmann et al., 2021).
WhoIsJack/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.
WhoIsJack/python_teaching
Various bits of code from python sessions I've taught.
WhoIsJack/research-support-network.github.io
WhoIsJack/styles
Official repository for Citation Style Language (CSL) citation styles.
WhoIsJack/VolocityHacks
A collection of tiny tools that make the use of PE's Volocity easier.