README.md

Flower plot

A Python 3.9+ function that makes flower plots.

Installation

This package requires at least Python 3.9.

pip install git+https://github.com/MrTomRod/flower-plot.git

Example

Usage

# some data:
genome_to_data = {
    'FakeGenome0': {'color': (0.500, 0.000, 1.000), 'shell': 48, 'unique': 0},
    'FakeGenome1': {'color': (0.452, 0.073, 0.999), 'shell': 53, 'unique': 4},
    'FakeGenome2': {'color': (0.398, 0.159, 0.996), 'shell': 95, 'unique': 0}
}

import matplotlib.pyplot as plt
from flower_plot import flower_plot

flower_plot(genome_to_data=genome_to_data, n_core=788)
plt.tight_layout()
plt.show()

Result:

Arguments:

genome_to_data:   dictionary that maps genome names to associated data (color, number of unique and shell genes)
n_core:           number of core genes
shell_color:      color of the shell circle
core_color:       color of the core circle
alpha:            opacity of the ellipses
rotate_shell:     whether to rotate the number of shell genes text
rotate_unique:    whether to rotate the number of unique genes text
rotate_genome:    whether to rotate the genome name
default_fontsize: font size for number of genes and genome name
core_fontsize:    font size for number of core genes
ax:               matplotlib axis

Notes on making these plots interactive:

const extractComment = function (element) {
    return element.innerHTML.split('<!-- ')[1].split(' -->')[0]
}

// find flower pot svg
const flowerPlot = document.getElementById('flower-plot')

// iterate over the leafs
flowerPlot.querySelectorAll('*[id^="flower-genome-"]').forEach(genomeElement => {
    const genomeName = genomeElement.id.substring(14)
    const shellElement = flowerPlot.querySelector('#flower-shell-' + genomeName)
    const uniqueElement = flowerPlot.querySelector('#flower-unique-' + genomeName)
    
    // activate leaf genome name
    genomeElement.addEventListener("click", function () {
        console.log(genomeElement, genomeName)
    })
    
    // activate shell genes number
    shellElement.addEventListener("click", function () {
        console.log(shellElement, extractComment(shellElement))
    })
    
    // activate unique genes number
    uniqueElement.addEventListener("click", function () {
        console.log(uniqueElement, extractComment(uniqueElement))
    })
})

// activate core
flowerPlot.querySelector('#flower-core').addEventListener("click", function () {
    console.log(this, extractComment(flowerPlot.querySelector('#flower-core-text')))
})

// make cursor indicate the availability of a context menu
flowerPlot.querySelectorAll('*[id^="flower-"]').forEach(element => {
    element.style.cursor = "context-menu";
})