My python script uses matplotlib to plot a 2D "heat map" of an x, y, z dataset. My x- and y-values represent amino acid residues in a protein and can therefore only be integers. When I zoom into the plot, it looks like this:
As I said, float values on the x-y axes do not make sense with my data and I therefore want it to look like this:
Any ideas how to achieve this? This is the code that generates the plot:
def plotDistanceMap(self):
# Read on x,y,z
x = self.currentGraph['xData']
y = self.currentGraph['yData']
X, Y = numpy.meshgrid(x, y)
Z = self.currentGraph['zData']
# Define colormap
cmap = colors.ListedColormap(['blue', 'green', 'orange', 'red'])
cmap.set_under('white')
cmap.set_over('white')
bounds = [1,15,50,80,100]
norm = colors.BoundaryNorm(bounds, cmap.N)
# Draw surface plot
img = self.axes.pcolor(X, Y, Z, cmap=cmap, norm=norm)
self.axes.set_xlim(x.min(), x.max())
self.axes.set_ylim(y.min(), y.max())
self.axes.set_xlabel(self.currentGraph['xTitle'])
self.axes.set_ylabel(self.currentGraph['yTitle'])
# Cosmetics
#matplotlib.rcParams.update({'font.size': 12})
xminorLocator = MultipleLocator(10)
yminorLocator = MultipleLocator(10)
self.axes.xaxis.set_minor_locator(xminorLocator)
self.axes.yaxis.set_minor_locator(yminorLocator)
self.axes.tick_params(direction='out', length=6, width=1)
self.axes.tick_params(which='minor', direction='out', length=3, width=1)
self.axes.xaxis.labelpad = 15
self.axes.yaxis.labelpad = 15
# Draw colorbar
colorbar = self.figure.colorbar(img, boundaries = [0,1,15,50,80,100],
spacing = 'proportional',
ticks = [15,50,80,100],
extend = 'both')
colorbar.ax.set_xlabel('Angstrom')
colorbar.ax.xaxis.set_label_position('top')
colorbar.ax.xaxis.labelpad = 20
self.figure.tight_layout()
self.canvas.draw()
This should be simpler:
(from https://scivision.co/matplotlib-force-integer-labeling-of-axis/)
import matplotlib.pyplot as plt
from matplotlib.ticker import MaxNLocator
#...
ax = plt.figure().gca()
#...
ax.xaxis.set_major_locator(MaxNLocator(integer=True))
Read the official docs: https://matplotlib.org/stable/api/ticker_api.html#matplotlib.ticker.MaxNLocator