To support the analysis of large sets of compounds, cheminformatics tools allow users to explore the data by means of exploratory visualization techniques, for example by projecting a high-dimensional space into a low-dimensional space and enabling interactivity. One common desired outcome of multidimensional projection techniques is to preserve the relative distances between the samples as much as possible, either globally or in neighborhoods of similar entities . By representing compounds in a two-dimensional space, the chemical space can be explored, and similar compounds can be identified .