Simulation With Arena Kelton Solution Manual .pdf.rar

Simulation With Arena Kelton Solution Manual .pdf.rar

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Next, the tutorial simulates GroEL using FFEA, with the same set up and parameters, using the deformable particle mode to simulate a deformable object, as described in more detail in the manual. The tutorial then runs GroEL simulations in continuous translation, deformation and rotation motion, and a simulation of a power-stroke is performed for GroEL. The tutorial provides a comparison of the results of the simulations, and highlights the differences between rigid and deformable protein simulations.

To simulate a simulation of GroEL, the user must first create a finite element model of the protein. This can be achieved using the FFEA command line arguments, and the model is generated automatically using the provided libraries and GUI. The user must then choose between the two modes of simulating GroEL in FFEA, either as a rigid or as a deformable particle, and which motion to calculate, either rigid-body or deformation, which is covered in more detail in the user manual. Finally, the user chooses parameters to represent the protein, and is then ready to perform the simulation.

The tutorial starts by setting up a simulation of rigid GroEL, using the OpenMM package for molecular dynamics simulations. The user then simulates the system with different initial velocities, and with and without the introduction of thermal fluctuations to the system. The simulation is then analysed to show the close correspondence between the overall dynamics of GroEL, and the position and orientation of the GroEL subunits.

The MATLAB environment is based on the MathWorks MATLAB® Compiler, or MMC, which is a proprietary language developed by MathWorks to facilitate the building of applications. MMC understands the MATLAB language and various task APIs and provides efficient intermediate language compilers for compiling functions and scripts.

The MATLAB® Engine is the core of the MATLAB product. It compiles, executes, and interprets MATLAB scripts and programs, as well as runs the M-files and M-links created by the MMC. It also allows the exchange of data between MATLAB applications, the MathWorks M-files and M-links, and other programming languages, including C, C++, and Visual Basic. 827ec27edc