The present disclosure relates to systems, methods, and non-transitory computer-readable media that generate interactive visual shape representation of digital datasets. For example, the disclosed systems can generate an augmented nearest neighbor network graph from a sampled subset of digital data points using a nearest neighbor model and witness complex model. The disclosed system can further generate a landmark network graph based on the augmented nearest neighbor network graph utilizing a plurality of random walks. The disclosed systems can also generate a loop-augmented spanning network graph based on a partition of the landmark network graph by adding community edges between communities of landmark groups based on modularity and to complete community loops. Based on the loop-augmented spanning network graph, the disclosed systems can generate an interactive visual shape representation for display on a client device.