kymograph-py

Utility code to generate kymograph plots from nD images, compatible with napari

Installation

Install with

pip install python-kymograph

Quickstart

from kymograph_py import make_kymograph

Demo

Try it on your browser / without an account on marimo 🍃🌊! https://marimo.app/?slug=pdm593

For an example using napari, see napari_kymograph_advanced_example.ipynb in the tutorials folder

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Acknowledgements

This code was generated as part of the following study biorxiv - Application of tissue-scale tension to avian epithelia in vivo to study multiscale mechanical properties and inter-germ layer coupling and I thank all co-authors for their input. If you find this code useful, please consider citing

@article {Oikonomou2024.04.04.588089,
	author = {Oikonomou, Panagiotis and Calvary, Lisa and Cirne, Helena C. and Welch, Andreas E. and Durel, John F. and Powell, Olivia and Nerurkar, Nandan L.},
	title = {Application of tissue-scale tension to avian epithelia in vivo to study multiscale mechanical properties and inter-germ layer coupling},
	elocation-id = {2024.04.04.588089},
	year = {2024},
	doi = {10.1101/2024.04.04.588089},
	publisher = {Cold Spring Harbor Laboratory},
	URL = {https://www.biorxiv.org/content/early/2024/04/06/2024.04.04.588089},
	eprint = {https://www.biorxiv.org/content/early/2024/04/06/2024.04.04.588089.full.pdf},
	journal = {bioRxiv}
}