free-energy

Maroudas, Dimitrios, Miguel Amat, Ioannis Kevrekidis, Derosa, and Cagin. 2011. Coarse Molecular-Dynamics Analysis of Structural Transitions in Solid Materials. Boca Raton: Crc Press-Taylor & Francis Group.

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Calderon, Tsekouras, Provata, Kevrekidis, Gorban, Kazantzis, Kevrekidis, Ottinger, and Theodoropoulos. 2006. Coarse-Graining the Cyclic Lotka-Volterra Model: SSA and Local Maximum Likelihood Estimation. Berlin: Springer-Verlag Berlin.

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Sriraman, Kevrekidis, and Hummer. (2005) 2005. “Coarse Nonlinear Dynamics and Metastability of Filling-Emptying Transitions: Water in Carbon Nanotubes”. Physical Review Letters 95 (13): 130603.

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Erban, Radek, Thomas Frewen, Xiao Wang, Timothy Elston, Ronald Coifman, Boaz Nadler, and Ioannis Kevrekidis. (2007) 2007. “Variable-Free Exploration of Stochastic Models: A Gene Regulatory Network Example”. Journal of Chemical Physics 126 (15): 155103.

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Kopelevich, Panagiotopoulos, and Kevrekidis. (2005) 2005. “Coarse-Grained Kinetic Computations for Rare Events: Application to Micelle Formation”. Journal of Chemical Physics 122 (4): 044908.

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Amat, Miguel, Ioannis Kevrekidis, and Dimitrios Maroudas. (2007) 2007. “Coarse Molecular-Dynamics Analysis of Stress-Induced Structural Transitions in Crystals”. Applied Physics Letters 90 (17): 171910.

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Moon, Sung Joon, and Ioannis Kevrekidis. (2006) 2006. “An Equation-Free Approach to Coupled Oscillator Dynamics: The Kuramoto Model Example”. International Journal of Bifurcation and Chaos 16 (7): 2043-52.

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Ferguson, Andrew, Athanassios Panagiotopoulos, Pablo Debenedetti, and Ioannis Kevrekidis. (2011) 2011. “Integrating Diffusion Maps With Umbrella Sampling: Application to Alanine Dipeptide”. Journal of Chemical Physics 134 (13): 135103.

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Kopelevich, Panagiotopoulos, and Kevrekidis. (2005) 2005. “Coarse-Grained Computations for a Micellar System”. Journal of Chemical Physics 122 (4): 044907.

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Samaey, Giovanni, Wim Vanroose, Dirk Roose, and Ioannis Kevrekidis. 2008. “Newton-Krylov Solvers for the Equation-Free Computation of Coarse Traveling Waves”. Computer Methods in Applied Mechanics and Engineering 197 (43-44): 3480-91.

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Kevrekidis, I. G., C. W. Gear, and G. Hummer. (2004) 2004. “Equation-Free: The Computer-Aided Analysis of Comptex Multiscale Systems”. Aiche Journal 50 (7): 1346-55.

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Ferguson, Andrew, Athanassios Panagiotopoulos, Pablo Debenedetti, and Ioannis Kevrekidis. (2010) 2010. “Systematic Determination of Order Parameters for Chain Dynamics Using Diffusion Maps”. Proceedings of the National Academy of Sciences of the United States of America 107 (31): 13597-602.

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Coifman, Kevrekidis, Lafon, Maggioni, and Nadler. 2008. “DIFFUSION MAPS, REDUCTION COORDINATES, AND LOW DIMENSIONAL REPRESENTATION OF STOCHASTIC SYSTEMS”. Multiscale Modeling & Simulation 7 (2): 842-64.

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Amat, Miguel, Ioannis Kevrekidis, and Dimitrios Maroudas. (2006) 2006. “Coarse Molecular-Dynamics Determination of the Onset of Structural Transitions: Melting of Crystalline Solids”. Physical Review B 74 (13): 132201.

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