-
[Illinois] PHYS 466 Lecture 12: Constraints
08 Mar 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466 Lecture 13: Random Number Generators
08 Mar 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466 Lecture 9: Correlations II
08 Mar 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466 Lecture 10: Dynamics
06 Mar 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466 Lecture 8: Correlations I
06 Mar 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466 Lecture 7: Atomic Potential
04 Mar 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466: Atomic Scale Simulations
06 Feb 2013 | Courses | Contributor(s): David M. Ceperley
Application of Monte Carlo and Molecular Dynamics techniques in primarily classical simulations to understand and predict properties of microscopic systems in materials science, physics, biology, and chemistry. Numerical algorithms, connections between simulation results and real properties of …
-
[Illinois] PHYS 466 Lecture 4: Molecular Dynamics I
06 Feb 2013 | Online Presentations | Contributor(s): David M. Ceperley
…
-
[Illinois] PHYS 466 Lecture 6: Interatomic Potentials
06 Feb 2013 | Online Presentations | Contributor(s): David M. Ceperley, NanoBio Node
…
-
[Illinois] PHYS 466 Lecture 3: Basics of Mechanical Statistics
06 Feb 2013 | Online Presentations | Contributor(s): David M. Ceperley, NanoBio Node
…
-
Illinois PHYS 466, Lecture 19: The Ising Model
01 Jun 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
…
-
Illinois PHYS 466, Lecture 18: Kinetic Monte Carlo (KMC)
04 May 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
…
-
Illinois PHYS 466, Lecture 17: Simulation of Polymers
30 Apr 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
…
-
Illinois PHYS 466, Lecture 16: Free Energies from Simulations
28 Apr 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
…
-
Illinois PHYS 466, Lecture 15: Constraints
22 Apr 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
…
-
Illinois PHYS 466, Lecture 14: Neighbor Tables, Long-Range Potentials, Ewald Sums
22 Apr 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
…
-
Illinois PHYS 466, Lecture 13: Brownian Dynamics
08 Apr 2009 | Online Presentations | Contributor(s): David M. Ceperley
Brownian Dynamics
Let’s explore the connection between Brownian motion and Metropolis Monte Carlo. Why?
Connection with smart MC
Introduce the idea of kinetic Monte Carlo
Get rid of solvent degrees of freedom and have much longer time steps.
Content:
Local Markov process
…
-
Illinois PHYS 466, Lecture 12: Random Walks
30 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley
Random Walks
Today we will discuss Markov chains (random walks), detailed balance and transition rules.
These methods were introduced by Metropolis et al. in 1953
who applied it to a hard sphere liquid.
It is one of the most powerful and used algorithms
Content:
Equation of …
-
Illinois PHYS 466, Lecture 11: Importance Sampling
20 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley
Importance sampling
Today We will talk about the third option: Importance sampling and correlated sampling
Content:
Importance Sampling
Finding Optimal p*(x) for Sampling
Example of importance sampling
What are allowed values of a?
What does infinite variance look like?
General …
-
Illinois PHYS 466, Lecture 10: Sampling
20 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley, Omar N Sobh
Fundamentals of Monte Carlo
What is Monte Carlo?
Named at Los Alamos in 1940’s after the casino.
Any method which uses (pseudo)random numbers> as an essential part of the algorithm.
Stochastic - not deterministic!
A method for doing highly dimensional integrals by sampling the …
-
Illinois PHYS 466, Lecture 9: Probability tools & Random number generators
03 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley
Random Number Generation (RNG)
read “Numerical Recipes” on random numbers and chi-squared test
Today we discuss how to generate and test random numbers.
What is a random number?
A single number is not random.Only an infinite sequence can be described as random.
Random means the …
-
Illinois PHYS 466, Lecture 8: Temperature and Pressure Controls
03 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley
Temperature and Pressure Controls
Content:
Constant Temperature MD
Quench method
Brownian dynamics/Anderson thermostat
Nose-Hoover thermostat (FS 6.1.2)
Nose-Hoover thermodynamics
Effect of thermostat
Comparison of Thermostats
Constant pressure or constant volume
Constant …
-
Illinois PHYS 466, Lecture 6: Scalar Properties and Static Correlations
03 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley
Scalar Properties, Static Correlations and Order Parameters
What do we get out of a simulation?
Static properties: pressure, specific heat, etc.
Density
Pair correlations in real space and Fourier space
Order parameters and broken symmetry: How to tell a liquid from a solid
Dynamical …
-
Illinois PHYS 466, Lecture 7: Dynamical Correlations & Transport Coefficients
02 Mar 2009 | Online Presentations | Contributor(s): David M. Ceperley
Dynamical correlations and transport coefficients
Dynamics is why we do molecular dynamics!
Perturbation theory
Linear-response theory
Diffusion constants, velocity-velocity auto correlation fct.
Transport coefficients
Diffusion: Particle flux
Viscosity: …
-
Illinois PHYS 466, Lecture 5: Interatomic Potentials
18 Feb 2009 | Online Presentations | Contributor(s): David M. Ceperley
Interatomic Potentials
Before we can start a simulation, we need the model!
Interaction between atoms and molecules is determined by quantum mechanics
But we don’t know V(R)!
Content:
The electronic-structure problem
Born-Oppenheimer (1927) Approximation
Semi-empirical …