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Updated: May 30, 2025

Analyzing Mitochondrial Morphology Through Simulation Supervised Learning
Published on: March 3, 2023
ULaMDyn: enhancing excited-state dynamics analysis through streamlined unsupervised learning
Max Pinheiro1, Matheus de Oliveira Bispo1, Rafael S Mattos1
1Aix Marseille University, CNRS, ICR 13397 Marseille France maxjr82@gmail.com bidhan-chandra.garain@univ-amu.fr.
Abstract:
The analysis of nonadiabatic molecular dynamics (NAMD) data presents significant challenges due to its high dimensionality and complexity. To address these issues, we introduce ULaMDyn, a Python-based, open-source package designed to automate the unsupervised analysis of large datasets generated by NAMD simulations. ULaMDyn integrates seamlessly with the Newton-X platform and employs advanced dimensionality reduction and clustering techniques to uncover hidden patterns in molecular trajectories, enabling a more intuitive understanding of excited-state processes. Using the photochemical dynamics of fulvene as a test case, we demonstrate how ULaMDyn efficiently identifies critical molecular geometries and critical nonadiabatic transitions. The package offers a streamlined, scalable solution for interpreting large NAMD datasets. It is poised to facilitate advances in the study of excited-state dynamics across a wide range of molecular systems.
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