Hollow-tree Super: a directional and scalable approach for feature importance in boosted tree models

Current limitations in boosted tree modelling prevent the effective scaling to datasets with a large feature number, particularly when investigating the magnitude and directionality of various features on classification. We present a novel methodology, Hollow-tree Super (HOTS), to resolve and visualize feature importance in boosted tree models involving a large number of features. Further, HOTS allows for investigation of the directionality and magnitude various features have on classification. Using the Iris dataset, we first compare HOTS to Gini Importance, Partial Dependence Plots, and Permutation Importance, and demonstrate how HOTS resolves the weaknesses present in these methods. We then show how HOTS can be utilized in high dimensional neuroscientific data, by taking 60 Schizophrenic subjects and applying the method to determine which brain regions were most important for classification of schizophrenia as determined by the PANSS. HOTS effectively replicated and supported the findings of Gini importance, Partial Dependence Plots and Permutation importance within the Iris dataset. When applied to the schizophrenic brain dataset, HOTS was able to resolve the top 10 most important features for classification, as well as their directionality for classification and magnitude compared to other features. Cross-validation supported that these same 10 features were consistently used in the decision-making process across multiple trees, and these features were localised primarily to the occipital and parietal cortices, commonly disturbed brain regions in those with Schizophrenia. It is imperative that a methodology is developed that is able to handle the demands of working with large datasets that contain a large number of features. HOTS represents a unique way to investigate both the directionality and magnitude of feature importance when working at scale with boosted-tree modelling.
Comment: 28 pages, 1 table, 7 figures, PDF format - Submitted to PLOSONE pending review