radarPlot.py

import numpy as np

import matplotlib.pyplot as plt
from matplotlib.path import Path
from matplotlib.spines import Spine
from matplotlib.projections.polar import PolarAxes
from matplotlib.projections import register_projection
import random

def radar_factory(num_vars, frame='circle'):
    """Create a radar chart with `num_vars` axes.

    This function creates a RadarAxes projection and registers it.

    Parameters
    ----------
    num_vars : int
        Number of variables for radar chart.
    frame : {'circle' | 'polygon'}
        Shape of frame surrounding axes.

    """
    # calculate evenly-spaced axis angles
    theta = np.linspace(0, 2*np.pi, num_vars, endpoint=False)

    def draw_poly_patch(self):
        # rotate theta such that the first axis is at the top
        verts = unit_poly_verts(theta + np.pi / 2)
        return plt.Polygon(verts, closed=True, edgecolor='k')

    def draw_circle_patch(self):
        # unit circle centered on (0.5, 0.5)
        return plt.Circle((0.5, 0.5), 0.5)

    patch_dict = {'polygon': draw_poly_patch, 'circle': draw_circle_patch}
    if frame not in patch_dict:
        raise ValueError('unknown value for `frame`: %s' % frame)

    class RadarAxes(PolarAxes):

        name = 'radar'
        # use 1 line segment to connect specified points
        RESOLUTION = 1
        # define draw_frame method
        draw_patch = patch_dict[frame]

        def __init__(self, *args, **kwargs):
            super().__init__(*args, **kwargs)
            # rotate plot such that the first axis is at the top
            self.set_theta_zero_location('N')

        def fill(self, *args, closed=True, **kwargs):
            """Override fill so that line is closed by default"""
            return super().fill(closed=closed, *args, **kwargs)

        def plot(self, *args, **kwargs):
            """Override plot so that line is closed by default"""
            lines = super().plot(*args, **kwargs)
            for line in lines:
                self._close_line(line)

        def _close_line(self, line):
            x, y = line.get_data()
            # FIXME: markers at x[0], y[0] get doubled-up
            if x[0] != x[-1]:
                x = np.concatenate((x, [x[0]]))
                y = np.concatenate((y, [y[0]]))
                line.set_data(x, y)

        def set_varlabels(self, labels):
            self.set_thetagrids(np.degrees(theta), labels)

        def _gen_axes_patch(self):
            return self.draw_patch()

        def _gen_axes_spines(self):
            if frame == 'circle':
                return super()._gen_axes_spines()
            # The following is a hack to get the spines (i.e. the axes frame)
            # to draw correctly for a polygon frame.

            # spine_type must be 'left', 'right', 'top', 'bottom', or `circle`.
            spine_type = 'circle'
            verts = unit_poly_verts(theta + np.pi / 2)
            # close off polygon by repeating first vertex
            verts.append(verts[0])
            path = Path(verts)

            spine = Spine(self, spine_type, path)
            spine.set_transform(self.transAxes)
            return {'polar': spine}

    register_projection(RadarAxes)
    return theta


def unit_poly_verts(theta):
    """Return vertices of polygon for subplot axes.

    This polygon is circumscribed by a unit circle centered at (0.5, 0.5)
    """
    x0, y0, r = [0.5] * 3
    verts = [(r*np.cos(t) + x0, r*np.sin(t) + y0) for t in theta]
    return verts

def radarPlot(data,cells):
    N = len(data[0])
    theta = radar_factory(N, frame='polygon')
    spoke_labels = data.pop(0)
    rw=int(np.ceil(N/3))
    fig, axes = plt.subplots(figsize=(20,20), nrows=rw, ncols=3,
                                 subplot_kw=dict(projection='radar'))
    fig.subplots_adjust(wspace=.7, hspace=.8, top=0.9, bottom=0.01)
    
    #colors = ["#"+''.join([random.choice('0123456789ABCDEF') for j in range(6)]) for i in range(number_of_colors)]
    
    #colors=['#ffe119','#0082c8','#f58231','#911eb4','#46f0f0','#f032e6','#d2f53c','#fabebe','#008080','#e6beff',
    #        '#aa6e28','#fffac8','#800000','#aaffc3','#808000','#ffd8b1','#000080','#808080','#FFFFFF','#000000']
    j=0
    for ax, (title, case_data) in zip(axes.flatten(), data):
        ax.set_rgrids([0.2, 0.2, 0.4, 0.8])
        ax.set_title(title, weight='bold', size='medium', position=(0.5, 1.1), horizontalalignment='center', verticalalignment='center')
        #np.random.shuffle(colors)
        colors = ["#"+''.join([random.choice('0123456789ABCDEF') for j in range(6)]) for i in range(len(cells[j]))]
        
        for d, color in zip(case_data, colors):
            if(d.size==0):
                continue
            else:
                ax.plot(theta, d, color=color)
                ax.fill(theta, d, facecolor=color, alpha=0.25)
        ax.set_varlabels(spoke_labels)
        labels = cells[j]
        legend = ax.legend(labels, loc=(1.2, 0),labelspacing=0.1, fontsize='small')
        j+=1
    #plt.tight_layout()
    plt.savefig("dart_all_significant_genes.pdf", format="pdf", dpi=300)
    plt.show()
    return plt.show()