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Omnia

Simulate. Analyze. Explore. High performance, high usability toolkits for predictive biomolecular simulation. Is CPU / GPU accelerated molecular dynamics with an intuitive Python interface. Wrappers for C, C , and Fortran. Is a GPU-accelerated Python framework for exploring algorithms for alchemical free energy calculations. A powerful, flexible tool for preparing PDB files for molecular simulation or modeling, capable of running in interactive, Python-scriptable, or fully automated modes.

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Simulate. Analyze. Explore. High performance, high usability toolkits for predictive biomolecular simulation. Is CPU / GPU accelerated molecular dynamics with an intuitive Python interface. Wrappers for C, C , and Fortran. Is a GPU-accelerated Python framework for exploring algorithms for alchemical free energy calculations. A powerful, flexible tool for preparing PDB files for molecular simulation or modeling, capable of running in interactive, Python-scriptable, or fully automated modes.
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3 who we are
4 blog
5 simulation and setup
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7 yank
8 pdbfixer
9 ensembler
10 omics
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Omnia | omnia.md Reviews

https://omnia.md

Simulate. Analyze. Explore. High performance, high usability toolkits for predictive biomolecular simulation. Is CPU / GPU accelerated molecular dynamics with an intuitive Python interface. Wrappers for C, C , and Fortran. Is a GPU-accelerated Python framework for exploring algorithms for alchemical free energy calculations. A powerful, flexible tool for preparing PDB files for molecular simulation or modeling, capable of running in interactive, Python-scriptable, or fully automated modes.

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choderalab.org choderalab.org

Code — Chodera lab // MSKCC

http://www.choderalab.org/code

Chodera lab / MSKCC. Chodera lab / MSKCC. Chodera lab / MSKCC. Changing drug discovery one ratio of partition functions at a time. Chodera lab / MSKCC. See the Chodera lab. We contribute applications and tools to the Omnia suite. Of molecular modeling and simulation tools based on the OpenMM. GPU-accelerated molecular modeling package. An open, extensible platform for GPU-accelerated alchemical binding free energy calculations. Using the OpenMM toolkit.

openmm.org openmm.org

About OpenMM

http://openmm.org/about.html

Backed by researchers and developers from Stanford University, MSKCC, and others around the world. Want a custom force between two atoms? No problem. Write your force expressions in string format, and OpenMM will generate blazing fast code to do just that. No more hand-writing GPU kernels. OpenMM is optimized for the latest generation of compute hardware, including AMD (via OpenCL) and NVIDIA (via CUDA) GPUs. We also heavily optimize for CPUs using intrinsics. Get started quickly with the Python Wrapper.

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omnia.md omnia.md

Omnia

Simulate. Analyze. Explore. High performance, high usability toolkits for predictive biomolecular simulation. Is CPU / GPU accelerated molecular dynamics with an intuitive Python interface. Wrappers for C, C , and Fortran. Is a GPU-accelerated Python framework for exploring algorithms for alchemical free energy calculations. A powerful, flexible tool for preparing PDB files for molecular simulation or modeling, capable of running in interactive, Python-scriptable, or fully automated modes.

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Omnia

Omnia - Latin for "Everything". This site is a collection of my personal notes on various topics. Special lists of pages:. Retrieved from " http:/ omnia.oeey.com/index.php? This page was last modified on 26 April 2015, at 15:33. This page has been accessed 6,652 times. Content is available under Creative Commons Attribution-ShareAlike.

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