Homology-Preserving Dimensionality Reduction via Adaptive Mapper and Landmark Isomap

Abstract: As data becomes increasingly central across engineering and scientific disciplines, effective visualization is essential for interpreting complex, high-dimensional structures. Dimensionality reduction techniques project high-dimensional data into lower dimensions while aiming to preserve structural properties such as pairwise distances and local neighborhoods. In this paper, we focus on improving homological preservation, that is, the retention of topological features such as connected components and loops, which is critical for maintaining global shape and continuity. We first introduce AdaMapper, a Mapper-based algorithm that leverages persistence diagrams to guide both skeleton construction and landmark selection. AdaMapper incorporates an adaptive refinement strategy that automatically increases cover resolution in regions exhibiting topological loops. We then propose AdaHIsomap, which extends landmark Isomap by incorporating homology-informed landmark selection and augmenting it with random anchor points to better balance distance and homology preservation. We evaluate both methods on a diverse set of datasets, including high-dimensional point clouds, scientific simulations, networks, and image data, and benchmark their performance against state-of-the-art approaches.