Performance modeling of hospitals using data envelopment analysis (DEA) has received steadily increasing attention in the literature. As part of the traditional DEA framework, hospitals are generally assumed to be functionally similar and therefore homogenous. Accordingly, any identified inefficiency is supposedly due to the inefficient use of inputs to produce outputs. However, the disparities in DEA efficiency scores may be a result of the inherent heterogeneity of hospitals. Additionally, traditional DEA models lack predictive capabilities despite having been frequently used as a benchmarking tool in the literature. To address these concerns, this study proposes a framework for analyzing hospital performance by combining two complementary modeling approaches. Specifically, we employ a self-organizing map artificial neural network (SOM-ANN) to conduct a cluster analysis and a multilayer perceptron ANN (MLP-ANN) to perform a heterogeneity analysis and a best practice analysis. The applicability of the integrated framework is empirically shown by an implementation to a large dataset containing more than 1,100 hospitals in Germany. The framework enables a decision-maker not only to predict the best performance but also to explore whether the differences in relative efficiency scores are ascribable to the heterogeneity of hospitals.