This function visualizes the stability of SHAP feature importance values across cross-validation
resamples. It computes the mean absolute SHAP value and standard deviation per feature, then
generates a horizontal bar plot with error bars representing variability.
Usage
plot_shap_stability(shap_df, file.name)
Arguments
- shap_df
A data frame of SHAP values with samples in rows and features in columns.
- file.name
Character string specifying the filename prefix for the saved PDF plot.
Value
A horizontal bar plot saved as a PDF in the Results/ directory. The plot shows
the mean absolute SHAP value per feature and error bars indicating the standard deviation
across resamples.
Details
The function reshapes the SHAP values into long format, calculates the mean absolute value
and standard deviation per feature, and then creates a ggplot2 horizontal bar chart. The
plot is saved as a PDF with filename: "Results/SHAP_stability_resample_<file.name>.pdf".
