Enrique Fita Sanmartin

Cyril de Bodt, Alex Diaz-Papkovich, Michael Bleher et al.

Large collections of high-dimensional data have become nearly ubiquitous across many academic fields and application domains, ranging from biology to the humanities. Since working directly with high-dimensional data poses challenges, the demand for algorithms that create low-dimensional representations, or embeddings, for data visualization, exploration, and analysis is now greater than ever. In recent years, numerous embedding algorithms have been developed, and their usage has become widespread in research and industry. This surge of interest has resulted in a large and fragmented research field that faces technical challenges alongside fundamental debates, and it has left practitioners without clear guidance on how to effectively employ existing methods. Aiming to increase coherence and facilitate future work, in this review we provide a detailed and critical overview of recent developments, derive a list of best practices for creating and using low-dimensional embeddings, evaluate popular approaches on a variety of datasets, and discuss the remaining challenges and open problems in the field.

Enrique Fita Sanmartin, Sebastian Damrich, Fred A. Hamprecht

The seeded Watershed algorithm / minimax semi-supervised learning on a graph computes a minimum spanning forest which connects every pixel / unlabeled node to a seed / labeled node. We propose instead to consider all possible spanning forests and calculate, for every node, the probability of sampling a forest connecting a certain seed with that node. We dub this approach "Probabilistic Watershed". Leo Grady (2006) already noted its equivalence to the Random Walker / Harmonic energy minimization. We here give a simpler proof of this equivalence and establish the computational feasibility of the Probabilistic Watershed with Kirchhoff's matrix tree theorem. Furthermore, we show a new connection between the Random Walker probabilities and the triangle inequality of the effective resistance. Finally, we derive a new and intuitive interpretation of the Power Watershed.