Wasserstein metric for improved QML with adjacency matrix representations

Abstract: We study the Wasserstein metric to measure distances between molecules represented by the atom index dependent adjacency "Coulomb" matrix, used in kernel ridge regression based supervised learning. Resulting quantum machine learning models exhibit improved training efficiency and result in smoother predictions of molecular distortions. We first demonstrate smoothness for the continuous extraction of an atom from some organic molecule. Learning curves, quantifying the decay of the atomization energy's prediction error as a function of training set size, have been obtained for tens of thousands of organic molecules drawn from the QM9 data set. In comparison to conventionally used metrics ($L_1$ and $L_2$ norm), our numerical results indicate systematic improvement in terms of learning curve off-set for random as well as sorted (by norms of row) atom indexing in Coulomb matrices. Our findings suggest that this metric corresponds to a favorable similarity measure which introduces index-invariance in any kernel based model relying on adjacency matrix representations.