The study of network structure has uncovered signatures of the organization of complex systems. Using Boolean network ensembles, we demonstrate that structure-only methods both undershoot and overshoot the number and which sets of critical variables best control the dynamics of these models, highlighting the importance of the actual system dynamics in determining control. Our analysis further shows that the logic of automata transition functions, namely how canalizing they are, plays an important role in the extent to which structure predicts dynamics.
Clustering is one of the most universal approaches for understanding complex data. A pivotal aspect of clustering analysis is quantitatively comparing clusterings; clustering comparison is the basis for many tasks such as clustering evaluation, …
How knowledge informs and alters disciplines is itself an enlightening, and vibrant field. This type of meta research into new findings, insights, conceptual frameworks and techniques is important, among other things, for policymakers who fund research in the hope of tackling society’s most pressing challenges, which inevitably span disciplines.
We derive corrected variants of two clustering similarity measures (the Rand index and Mutual Information) in the context of two random clustering ensembles in which the number and sizes of clusters vary. In addition, we study the impact of one-sided comparisons in the scenario with a reference clustering. We demonstrate that the choice of random model can have a drastic impact on the ranking of similar clustering pairs, and the evaluation of a clustering method with respect to a random baseline; thus, the choice of random clustering model should be carefully justified.
Emergent individuals are often characterized with respect to their viability: their ability to maintain themselves and persist in variable environments. As such individuals interact with an environment, they undergo sequences of structural changes …
We introduce a spatial model of concentration dynamics that supports the emergence of spatiotemporal inhomogeneities that engage in metabolism–boundary co-construction. These configurations exhibit disintegration following some perturbations, and …
We propose a method to decompose dynamical systems based on the idea that modules constrain the spread of perturbations. We find partitions of system variables that maximize “perturbation modularity,” defined as the autocovariance of coarse-grained …
Designs and simulation results are given for two small, special-purpose nanoelectronic circuits. The area of special-purpose nanoelectronics has not been given much consideration previously, though much effort has been devoted to the development of …