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heatmapcluster
is a python library for generating a clustered heatmap
with dendrograms plotted along with the heatmap, such as the following:
.. image:: https://raw.githubusercontent.com/WarrenWeckesser/heatmapcluster/master/demo/heatmapcluster_demo.png :alt: Example plot :align: center :scale: 50 %
This is prototype-quality software. The documentation is sparse, and the API will likely change.
Plots are generated with matplotlib (http://matplotlib.org/). To use the package, numpy, scipy and matplotlib must be installed.
setuptools
is required to install the package using setup.py
.
This is heatmapcluster_demo.py
. Most of the code is the function make_data
,
which generates an array of data for the demonstration. The main part of the
demo is the last three statements of the script. This script generates the plot
shown above::
import numpy as np
import matplotlib.pyplot as plt
from heatmapcluster import heatmapcluster
def make_data(size, seed=None):
if seed is not None:
np.random.seed(seed)
s = np.random.gamma([7, 6, 5], [6, 8, 6], size=(size[1], 3)).T
i = np.random.choice(range(len(s)), size=size[0])
x = s[i]
t = np.random.gamma([8, 5, 6], [3, 3, 2.1], size=(size[0], 3)).T
j = np.random.choice(range(len(t)), size=size[1])
x += 1.1*t[j].T
x += 2*np.random.randn(*size)
row_labels = [('R%02d' % k) for k in range(x.shape[0])]
col_labels = [('C%02d' % k) for k in range(x.shape[1])]
return x, row_labels, col_labels
x, row_labels, col_labels = make_data(size=(64, 48), seed=123)
h = heatmapcluster(x, row_labels, col_labels,
num_row_clusters=3, num_col_clusters=0,
label_fontsize=6,
xlabel_rotation=-75,
cmap=plt.cm.coolwarm,
show_colorbar=True,
top_dendrogram=True)
plt.show()
FAQs
Heatmap cluster dendrogram plotter.
We found that heatmapcluster demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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