pandrawer

A fun way to give a pangenomic flavour to your organism of choice.

Usage

We just need an image (ideally a simple one where the outlining contour can be easily calculated), and output prefix for the .gfa and .layout. We can also adjust the number of bubbles we want introduced.

pandrawer --image cow.jpg --prefix award_winning_figure --bubbles 20

or

import pandrawer

pandrawer.pandrawer("cow.jpg","award_winning_figure",20)

You can then load the .gfa in BandageNG and then subsequently load the .layout file.

Example

Extensions

BandageNG generally produces very nice layouts, but we cannot fix some nodes via a provided .layout and let BandageNG layout the remaining nodes. Using various networkx force-layout algorithms didn't look nice either, but ideally we can add more complex bubbles/edges in a visually pleasing manner.

This also introduces a fixed number of simple bubbles. We could recursively add simple bubbles to simple bubbles to create more complex bubbles, or create bubbles with higher degrees.