How do I plot several sns.clustermap heatmaps in a single figure?
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3.7 years ago
roy.granit ▴ 880

Hi All,

Is there a way to plot several clustermaps in a single matplotlib figure.

Edit: I'm specifically using https://scvelo.readthedocs.io/scvelo.pl.heatmap.html to generate the heatmap. This returns an object of type seaborn.matrix.ClusterGrid

Thanks!

python seaborn • 5.4k views
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For now I've exported the plots to png files and loaded them into subplots:

plt.figure(figsize=(30, 15))
    plt.suptitle("title", fontsize=22)

    plt.subplot(133)
    plt.imshow(mpimg.imread('./figures/heatmap_2.png',format="png"))
    plt.title("expression")
    plt.grid(None) 
    plt.axis('off')

    plt.subplot(132)
    plt.imshow(mpimg.imread('./figures/heatmap_1.png'), format="png"))
    plt.grid(None) 
    plt.axis('off')

    plt.subplot(131)
    plt.imshow(mpimg.imread('./figures/3.png',format="png"))
    #plt.grid(None) 
    plt.grid(None) 
    plt.axis('off')

    plt.show()

Not ideal, but works..

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1
Entering edit mode
3.7 years ago

Define an ax my_ax element before, and when calling sns.clustermap use ax=my_ax as one of the parameters

f, ax = plt.subplots(figsize=(5, 6))
sns.clustermap(x="total_bill", y="tip", data=tips, ax=ax);
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Thanks, I'm actually using a specific type of clustermap (https://scvelo.readthedocs.io/scvelo.pl.heatmap.html) and when I try to add 'ax' to it I get an error: TypeError: heatmap() got multiple values for keyword argument 'ax'

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I'm also trying to do this and I get the same TypeError. Any other insights?

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Entering edit mode
3 months ago
Wubin ▴ 40

You can plot very complex heatmaps from data frame using python package PyComplexHeatmap: https://dingwb.github.io/PyComplexHeatmap/build/html/gallery.html

In addition, it allows you to composite multiple heatmap into one figure.

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