Question:

How to save shap summary_plot as image file

Solution:

The main purpose of the summary_plot function in the Python shap library is interactive visualization through the use of web-based environments or Jupyter notebooks. The savefig function from Matplotlib, the library that SHAP uses internally for plotting, can save the summary_plot as an image file.

First, you need to initialize a matplotlib and then plot the summary plot. Then interact with this figure object to save, close etc. In other words, try the following code:

import matplotlib.pyplot as plt

fig = plt.figure() # <---- initialize figure `fig`

shap.summary_plot(shap_values[cls][:,idx,:], X[:,idx,:])

save_path = 'shap_summary_plot.png'

fig.savefig(save_path) # <---- save `fig` (not current figure)

plt.close(fig) # <---- close `fig`

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