Create own colormap using matplotlib and plot color scale
Question:
I have the following problem, I want to create my own colormap (red-mix-violet-mix-blue) that maps to values between -2 and +2 and want to use it to color points in my plot.
The plot should then have the colorscale to the right.
That is how I create the map so far. But I am not really sure if it mixes the colors.
cmap = matplotlib.colors.ListedColormap(["red","violet","blue"], name='from_list', N=None)
m = cm.ScalarMappable(norm=norm, cmap=cmap)
That way I map the colors to the values.
colors = itertools.cycle([m.to_rgba(1.22), ..])
Then I plot it:
for i in range(0, len(array_dg)):
plt.plot(array_dg[i], markers.next(),alpha=alpha[i], c=colors.next())
My problems are:
1. I can’t plot the color scale.
2. I am not completely sure if my scale is creating a continues (smooth) colorscale.
Answers:
There is an illustrative example of how to create custom colormaps here.
The docstring is essential for understanding the meaning of
cdict. Once you get that under your belt, you might use a cdict like this:
cdict = {'red': ((0.0, 1.0, 1.0),
(0.1, 1.0, 1.0), # red
(0.4, 1.0, 1.0), # violet
(1.0, 0.0, 0.0)), # blue
'green': ((0.0, 0.0, 0.0),
(1.0, 0.0, 0.0)),
'blue': ((0.0, 0.0, 0.0),
(0.1, 0.0, 0.0), # red
(0.4, 1.0, 1.0), # violet
(1.0, 1.0, 0.0)) # blue
}
Although the cdict format gives you a lot of flexibility, I find for simple
gradients its format is rather unintuitive. Here is a utility function to help
generate simple LinearSegmentedColormaps:
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.colors as mcolors
def make_colormap(seq):
"""Return a LinearSegmentedColormap
seq: a sequence of floats and RGB-tuples. The floats should be increasing
and in the interval (0,1).
"""
seq = [(None,) * 3, 0.0] + list(seq) + [1.0, (None,) * 3]
cdict = {'red': [], 'green': [], 'blue': []}
for i, item in enumerate(seq):
if isinstance(item, float):
r1, g1, b1 = seq[i - 1]
r2, g2, b2 = seq[i + 1]
cdict['red'].append([item, r1, r2])
cdict['green'].append([item, g1, g2])
cdict['blue'].append([item, b1, b2])
return mcolors.LinearSegmentedColormap('CustomMap', cdict)
c = mcolors.ColorConverter().to_rgb
rvb = make_colormap(
[c('red'), c('violet'), 0.33, c('violet'), c('blue'), 0.66, c('blue')])
N = 1000
array_dg = np.random.uniform(0, 10, size=(N, 2))
colors = np.random.uniform(-2, 2, size=(N,))
plt.scatter(array_dg[:, 0], array_dg[:, 1], c=colors, cmap=rvb)
plt.colorbar()
plt.show()
By the way, the for-loop
for i in range(0, len(array_dg)):
plt.plot(array_dg[i], markers.next(),alpha=alpha[i], c=colors.next())
plots one point for every call to plt.plot. This will work for a small number of points, but will become extremely slow for many points. plt.plot can only draw in one color, but plt.scatter can assign a different color to each dot. Thus, plt.scatter is the way to go.
If you want to automate the creating of a custom divergent colormap commonly used for surface plots, this module combined with @unutbu method worked well for me.
def diverge_map(high=(0.565, 0.392, 0.173), low=(0.094, 0.310, 0.635)):
'''
low and high are colors that will be used for the two
ends of the spectrum. they can be either color strings
or rgb color tuples
'''
c = mcolors.ColorConverter().to_rgb
if isinstance(low, basestring): low = c(low)
if isinstance(high, basestring): high = c(high)
return make_colormap([low, c('white'), 0.5, c('white'), high])
The high and low values can be either string color names or rgb tuples. This is the result using the surface plot demo:
Since the methods used in other answers seems quite complicated for such easy task, here is a new answer:
Instead of a ListedColormap, which produces a discrete colormap, you may use a LinearSegmentedColormap. This can easily be created from a list using the from_list method.
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.colors
x,y,c = zip(*np.random.rand(30,3)*4-2)
norm=plt.Normalize(-2,2)
cmap = matplotlib.colors.LinearSegmentedColormap.from_list("", ["red","violet","blue"])
plt.scatter(x,y,c=c, cmap=cmap, norm=norm)
plt.colorbar()
plt.show()
More generally, if you have a list of values (e.g. [-2., -1, 2]) and corresponding colors, (e.g. ["red","violet","blue"]), such that the nth value should correspond to the nth color, you can normalize the values and supply them as tuples to the from_list method.
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.colors
x,y,c = zip(*np.random.rand(30,3)*4-2)
cvals = [-2., -1, 2]
colors = ["red","violet","blue"]
norm=plt.Normalize(min(cvals),max(cvals))
tuples = list(zip(map(norm,cvals), colors))
cmap = matplotlib.colors.LinearSegmentedColormap.from_list("", tuples)
plt.scatter(x,y,c=c, cmap=cmap, norm=norm)
plt.colorbar()
plt.show()
This seems to work for me.
def make_Ramp( ramp_colors ):
from colour import Color
from matplotlib.colors import LinearSegmentedColormap
color_ramp = LinearSegmentedColormap.from_list( 'my_list', [ Color( c1 ).rgb for c1 in ramp_colors ] )
plt.figure( figsize = (15,3))
plt.imshow( [list(np.arange(0, len( ramp_colors ) , 0.1)) ] , interpolation='nearest', origin='lower', cmap= color_ramp )
plt.xticks([])
plt.yticks([])
return color_ramp
custom_ramp = make_Ramp( ['#754a28','#893584','#68ad45','#0080a5' ] )
I have the following problem, I want to create my own colormap (red-mix-violet-mix-blue) that maps to values between -2 and +2 and want to use it to color points in my plot.
The plot should then have the colorscale to the right.
That is how I create the map so far. But I am not really sure if it mixes the colors.
cmap = matplotlib.colors.ListedColormap(["red","violet","blue"], name='from_list', N=None)
m = cm.ScalarMappable(norm=norm, cmap=cmap)
That way I map the colors to the values.
colors = itertools.cycle([m.to_rgba(1.22), ..])
Then I plot it:
for i in range(0, len(array_dg)):
plt.plot(array_dg[i], markers.next(),alpha=alpha[i], c=colors.next())
My problems are:
1. I can’t plot the color scale.
2. I am not completely sure if my scale is creating a continues (smooth) colorscale.
There is an illustrative example of how to create custom colormaps here.
The docstring is essential for understanding the meaning of
cdict. Once you get that under your belt, you might use a cdict like this:
cdict = {'red': ((0.0, 1.0, 1.0),
(0.1, 1.0, 1.0), # red
(0.4, 1.0, 1.0), # violet
(1.0, 0.0, 0.0)), # blue
'green': ((0.0, 0.0, 0.0),
(1.0, 0.0, 0.0)),
'blue': ((0.0, 0.0, 0.0),
(0.1, 0.0, 0.0), # red
(0.4, 1.0, 1.0), # violet
(1.0, 1.0, 0.0)) # blue
}
Although the cdict format gives you a lot of flexibility, I find for simple
gradients its format is rather unintuitive. Here is a utility function to help
generate simple LinearSegmentedColormaps:
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.colors as mcolors
def make_colormap(seq):
"""Return a LinearSegmentedColormap
seq: a sequence of floats and RGB-tuples. The floats should be increasing
and in the interval (0,1).
"""
seq = [(None,) * 3, 0.0] + list(seq) + [1.0, (None,) * 3]
cdict = {'red': [], 'green': [], 'blue': []}
for i, item in enumerate(seq):
if isinstance(item, float):
r1, g1, b1 = seq[i - 1]
r2, g2, b2 = seq[i + 1]
cdict['red'].append([item, r1, r2])
cdict['green'].append([item, g1, g2])
cdict['blue'].append([item, b1, b2])
return mcolors.LinearSegmentedColormap('CustomMap', cdict)
c = mcolors.ColorConverter().to_rgb
rvb = make_colormap(
[c('red'), c('violet'), 0.33, c('violet'), c('blue'), 0.66, c('blue')])
N = 1000
array_dg = np.random.uniform(0, 10, size=(N, 2))
colors = np.random.uniform(-2, 2, size=(N,))
plt.scatter(array_dg[:, 0], array_dg[:, 1], c=colors, cmap=rvb)
plt.colorbar()
plt.show()
By the way, the for-loop
for i in range(0, len(array_dg)):
plt.plot(array_dg[i], markers.next(),alpha=alpha[i], c=colors.next())
plots one point for every call to plt.plot. This will work for a small number of points, but will become extremely slow for many points. plt.plot can only draw in one color, but plt.scatter can assign a different color to each dot. Thus, plt.scatter is the way to go.
If you want to automate the creating of a custom divergent colormap commonly used for surface plots, this module combined with @unutbu method worked well for me.
def diverge_map(high=(0.565, 0.392, 0.173), low=(0.094, 0.310, 0.635)):
'''
low and high are colors that will be used for the two
ends of the spectrum. they can be either color strings
or rgb color tuples
'''
c = mcolors.ColorConverter().to_rgb
if isinstance(low, basestring): low = c(low)
if isinstance(high, basestring): high = c(high)
return make_colormap([low, c('white'), 0.5, c('white'), high])
The high and low values can be either string color names or rgb tuples. This is the result using the surface plot demo:
Since the methods used in other answers seems quite complicated for such easy task, here is a new answer:
Instead of a ListedColormap, which produces a discrete colormap, you may use a LinearSegmentedColormap. This can easily be created from a list using the from_list method.
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.colors
x,y,c = zip(*np.random.rand(30,3)*4-2)
norm=plt.Normalize(-2,2)
cmap = matplotlib.colors.LinearSegmentedColormap.from_list("", ["red","violet","blue"])
plt.scatter(x,y,c=c, cmap=cmap, norm=norm)
plt.colorbar()
plt.show()
More generally, if you have a list of values (e.g. [-2., -1, 2]) and corresponding colors, (e.g. ["red","violet","blue"]), such that the nth value should correspond to the nth color, you can normalize the values and supply them as tuples to the from_list method.
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.colors
x,y,c = zip(*np.random.rand(30,3)*4-2)
cvals = [-2., -1, 2]
colors = ["red","violet","blue"]
norm=plt.Normalize(min(cvals),max(cvals))
tuples = list(zip(map(norm,cvals), colors))
cmap = matplotlib.colors.LinearSegmentedColormap.from_list("", tuples)
plt.scatter(x,y,c=c, cmap=cmap, norm=norm)
plt.colorbar()
plt.show()
This seems to work for me.
def make_Ramp( ramp_colors ):
from colour import Color
from matplotlib.colors import LinearSegmentedColormap
color_ramp = LinearSegmentedColormap.from_list( 'my_list', [ Color( c1 ).rgb for c1 in ramp_colors ] )
plt.figure( figsize = (15,3))
plt.imshow( [list(np.arange(0, len( ramp_colors ) , 0.1)) ] , interpolation='nearest', origin='lower', cmap= color_ramp )
plt.xticks([])
plt.yticks([])
return color_ramp
custom_ramp = make_Ramp( ['#754a28','#893584','#68ad45','#0080a5' ] )