Cluster Stability Selection

Stability selection (Meinshausen and Buhlmann, 2010) makes any feature selection method more stable by returning only those features that are consistently selected across many subsamples. We prove (in what is, to our knowledge, the first result of its kind) that for data containing highly correlated proxies for an important latent variable, the lasso typically selects one proxy, yet stability selection with the lasso can fail to select any proxy, leading to worse predictive performance than the lasso alone. We introduce cluster stability selection, which exploits the practitioner's knowledge that highly correlated clusters exist in the data, resulting in better feature rankings than stability selection in this setting. We consider several feature-combination approaches, including taking a weighted average of the features in each important cluster where weights are determined by the frequency with which cluster members are selected, which we show leads to better predictive models than previous proposals. We present generalizations of theoretical guarantees from Meinshausen and Buhlmann (2010) and Shah and Samworth (2012) to show that cluster stability selection retains the same guarantees. In summary, cluster stability selection enjoys the best of both worlds, yielding a sparse selected set that is both stable and has good predictive performance.