Thanks, Ryan, this is (amost) exactly what I was looking for. Now, I get the markers and their colors right, but I still have two problems:
The markers have a black edges, that I cannot get rid of. I've tried
rect = Rectangle(..., ec=None)
and also
col.set=edgecolor(None)
and 'None', respectively, both with no effect whatsoever.
The second problem is, that I cannot get the colorbar to work.
I tried
sc = ax.add_collection(col)
plt.colorbar(sc)
and
plt.colobar(col)
both do not work.
Any Ideas how to fix those two issues?
Thanks,
-Hackstein
···
Message: 4
Date: Thu, 25 Apr 2013 19:44:23 -0400
From: Ryan Nelson <rnelsonchem@...287...>
Subject: Re: [Matplotlib-users] Individual custom markers and colorbar
To: matplotlib-users@lists.sourceforge.net
Message-ID: <5179BFD7.7060106@...287...>
Content-Type: text/plain; charset="iso-8859-1"Hackstein,
Unfortunately, I'm not sure of an 'elegant' way to do what your asking
with a single call to scatter. Others may know a better way. However,
you can use rectangle patches and patch collections. (Requires a bit
more code than scatter but is ultimately more flexible.)I think the example below does what you need, but with random numbers.
Hope it helps a little.
Ryan
#######################
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.patches import Rectangle
from matplotlib.collections import PatchCollectionn = 100
# Get your xy data points, which are the centers of the rectangles.
xy = np.random.rand(n,2)# Set a fixed height
height = 0.02
# The variable widths of the rectangles
widths = np.random.rand(n)*0.1# Get a color map and color values (normalized between 0 and 1)
cmap = plt.cm.jet
colors = np.random.rand(n)rects = []
for p, w, c in zip(xy, widths, colors):
xpos = p[0] - w/2 # The x position will be half the width from the
center
ypos = p[1] - height/2 # same for the y position, but with height
rect = Rectangle( (xpos, ypos), w, height ) # Create a rectangle
rects.append(rect) # Add the rectangle patch to our list# Create a collection from the rectangles
col = PatchCollection(rects)
# set the alpha for all rectangles
col.set_alpha(0.3)
# Set the colors using the colormap
col.set_facecolor( cmap(colors) )# Make a figure and add the collection to the axis.
ax = plt.subplot(111)
ax.add_collection(col)
plt.show()###############################
On 4/24/2013 5:35 PM, Hackstein wrote:
Hi all,
I am trying to get a scatter plot using a colormap. Additionally, I
need to define every marker for every data point individually -- each
being a rectangle with fixed height but varying width as a function of
the y-value. X and y being the data coordinates, z being a number to
be color coded with the colormap.Ideally, I would like to create a list of width and height values for
each data point and tell the scatter plot to use those.So far I got colormapped data with custom markers (simplified):
[code]
import numpy as np
import matplotlib.pyplot as plt
from pylab import *
x = y = [1,2,3,4,5]
z = [2,4,6,8,10]
colors = cm.gnuplot2
verts_vec = list(zip([-10.,10.,10.,-10.],[-5.,-5.,5.,5.]))
fig = plt.figure(1, figsize=(14.40, 9.00))
ax = fig.add_subplot(1,1,1)
sc = ax.scatter(x, y, c=np.asarray(z), marker=None, edgecolor='None',
verts=verts_vec, cmap=colors, alpha=1.)plt.colorbar(sc, orientation='horizontal')
plt.savefig('test.png', dpi=200)
plt.close(1)
[/code]
But I need to define a marker size for each point, and I also need to
do that in axis scale values, not in points.I imagine giving verts a list of N*2 tuples instead of 2 tuples, N
being len(x), to define N individual markers.But when doing that I get the error that vertices.ndim==2.
A less elegant way would be to plot every data point in an individual
scatter plot function, using a for-loop iterating over all data
points. Then, however, I see no way to apply a colormap and colorbar.What is the best way to accomplish that then?
Thanks,
-Hackstein
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