Life sciences · Preprint
arXiv · October 27, 2026
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Eigenvalues are a workhorse of graph machine learning: spectral clustering, spectral graph neural networks, and graph kernels all summarize a network by the eigenvalues of a matrix. These eigenvalues are almost always treated as a static list of numbers. When a graph changes, however, its eigenvalues move, and when the matrix is not symmetric, they move in the complex plane, where they can wind around each other. The pattern of this winding is a braid, a classical object from topology. We propose spectral braids, a methodology for dynamic directed networks: each snapshot is aggregated into a community-level transition matrix, its complex eigenvalues are tracked over time, and the braid they trace is read off as a word. The word is then mapped to a matrix by the Burau representation, which gives a fixed-size feature vector for any classifier. The braid has a concrete meaning: each eigenvalue describes how a group of communities behaves, and each crossing records one group overtaking another. We evaluate the method on dynamic network classification, using synthetic networks of online communities whose labels describe how the network evolved between the same starting and ending states. Our experimental results show that the proposed features reach 97.1% accuracy on four classes, against 44.5% for the best feature set that does not track eigenvalues, and that the Burau features also separate networks containing the same events in a different order, which simple counts of crossings cannot do. To the best of our knowledge, this is the first study that defines braids and braid monodromy on graph data and uses them as features for learning on dynamic networks.