NAMD

NAMD

Theoretical and Computational Biophysics Group
NAMD Yade

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NAMD:

About

NAMD is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. Based on Charm++ parallel objects, it scales from desktop and laptop computers to high-end parallel platforms, hundreds of cores for typical simulations, and beyond 500,000 cores for the largest simulations. NAMD is built for researchers who need to simulate large molecular systems efficiently while preserving compatibility with widely used molecular modeling workflows. It uses the popular molecular graphics program VMD for simulation setup and trajectory analysis, and it is file-compatible with AMBER, CHARMM, and X-PLOR. It is designed to support biomolecular simulations involving proteins, membranes, nucleic acids, solvents, ions, and other molecular systems where atomic interactions and time-dependent motion need to be studied in detail.
Yade:

About

Yade is an extensible open source framework for discrete numerical models, focused on the Discrete Element Method. Its computation parts are written in C++ using a flexible object model that allows independent implementation of new algorithms and interfaces, while Python is used for rapid and concise scene construction, simulation control, postprocessing, and debugging. Yade is designed for researchers and engineers who need to create, run, inspect, modify, and extend particle-based simulations through scripts, interactive commands, graphical tools, and reusable simulation components. Simulations can be built from specialized generators or constructed directly with Python scripts, giving users flexibility for developing custom models, importing geometries, reusing code, and controlling the full simulation loop. It represents each simulation as a scene containing bodies, interactions, and resultant forces, with bodies defined by geometry, material properties, state variables, etc.
NAMD:

Platforms Supported

Windows Supported
Mac Supported
Linux Supported
Cloud Not Supported
On-Premises Not Supported
iPhone Not Supported
iPad Not Supported
Android Not Supported
Chromebook Not Supported
Yade:

Platforms Supported

Windows Not Supported
Mac Not Supported
Linux Supported
Cloud Not Supported
On-Premises Not Supported
iPhone Not Supported
iPad Not Supported
Android Not Supported
Chromebook Not Supported
NAMD:

Audience

Biophysicists, biologists, and simulation researchers requiring a biomolecular simulation tool for desktops, clusters, GPUs, and supercomputers
Yade:

Audience

Researchers and engineers seeking to simulate granular materials and particle-based systems using extensible discrete element modeling
NAMD:

Support

Phone Support Not Supported
24/7 Live Support Not Supported
Online Supported
Yade:

Support

Phone Support Not Supported
24/7 Live Support Not Supported
Online Supported
NAMD:

API

Offers API Not Supported
Yade:

API

Offers API Not Supported
NAMD:

Screenshots and Videos

Yade:

Screenshots and Videos

NAMD:

Pricing

Free
Free Version Supported
Free Trial Not Supported
Yade:

Pricing

Free
Free Version Supported
Free Trial Not Supported
NAMD:

Reviews/Ratings

Overall 0.0 / 5
ease 0.0 / 5
features 0.0 / 5
design 0.0 / 5
support 0.0 / 5

This software hasn't been reviewed yet. Be the first to provide a review:

Review this Software
Yade:

Reviews/Ratings

Overall 0.0 / 5
ease 0.0 / 5
features 0.0 / 5
design 0.0 / 5
support 0.0 / 5

This software hasn't been reviewed yet. Be the first to provide a review:

Review this Software
NAMD:

Training

Documentation Supported
Webinars Not Supported
Live Online Not Supported
In Person Not Supported
Yade:

Training

Documentation Supported
Webinars Not Supported
Live Online Not Supported
In Person Not Supported
NAMD:

Company Information

Theoretical and Computational Biophysics Group
Founded: 2006
United States
www.ks.uiuc.edu/Research//namd/
Yade:

Company Information

Yade
Founded: 2009
Czech Republic
yade-dem.org/doc/
NAMD:

Alternatives

Yade:

Alternatives

NAMD:
Yade:
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NAMD:
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NAMD:
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Yade:
Samadii Multiphysics

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Metariver Technology Co.,Ltd
4.5 out of 5 stars
NAMD:
Yade:
NAMD:

Categories

Yade:

Categories

NAMD:

Integrations

C++ Not Supported
Python Not Supported
Yade:

Integrations

C++ Supported
Python Supported
NAMD:
Claim NAMD and update features and information
Claim NAMD and update features and information
Yade:
Claim Yade and update features and information
Claim Yade and update features and information