Molecular Modeling

PyMOL is a Python-enhanced molecular graphics tool. It excels at 3D visualization of proteins, small molecules, density, surfaces, and trajectories. It also includes molecular editing, ray tracing, and movies. Open Source PyMOL is free to everyone! Platforms: Windows, Mac, BSD, Solaris, Linux

Pyslice provides utility functions for parametric modeling. PySlice creates data sets based on a series of template files, then runs a model against each data set. It tracks each model's progress keeping the total number under a user set limit. Platforms: Windows, Mac, Linux

Tissue Modeling Tool (TMT) is a Matlab-based open source project aiming to share constitutive modeling code and algorithms within the tissue biomechanics community. It is meant to be modular, fast, and easily extensible. Platforms: Windows, Mac, Linux

These files were used in the webinar on Modeling Mechanical, Electric and Hydraulic Systems in Simulink, which was broadcast on April 6th, 2006.In this webinar (Now Recorded and available from our website), we show how SimulinkdlT« enables faster and more effective development of controlled... Platforms: Matlab

Demo files from March 10, 2011 webinar titled 'Mathematical Modeling with MATLAB Products'.The first demo features a drug interaction example where MATLAB's surface fitting capabilities are used to model anesthetic response based on opioid and sedative concentrations.The second demo features a... Platforms: Matlab

This tool was designed as a simple modeling support for "Flotation kinetics - equation fitting" , File ID: #28583.It uses exactly the same first-order flotation kinetics equations (models): - Classical model - Klimpel model - Kelsall model - Modified Kelsall model - Gamma model - Fully mixed... Platforms: Matlab

This Program is the implementation of the paper"An Improved Hybrid Model for Molecular Image Denoising"Original Paper can be downloaded from : www.springerlink.com/index/g31k52277220rvu8.pdfCopies of the paper available... Platforms: Matlab

This archive contains a technical paper on modeling flexible bodies using SimMechanics and Simulink. The archive also includes the examples discussed in the technical paper.An overview of the techniques described here is presented in the following MATLAB Digest... Platforms: Matlab

NanoVis (beta version) allows to visualize any atomistic structure by reading a user defined file. The supported formats are "gen" and "xyz". There are two display modes: normal and "spacefill". In the zip file, with the .m file, there are two examples of structure and a file containing the atoms... Platforms: Matlab

When modeling feedback loop which is often used in designing a feedback controller, either MATLAB or Simulink will be sufficient to design and construct this ffedback loop. However, when dealing with complex feedback controller which involves multiple inputs and multiple outputs, it is easier to... Platforms: Matlab

Using an engine throttle valve modeling example, this demo shares some perspectives on creation of nonlinear models of dynamic systems from the measurements of its input and outputs. It describes useful workflows for approaching the task of data-based modeling using System Identification... Platforms: Matlab

Model for Soft Independent Modeling of Class Analogy (SIMCA) simca_model=simca(x,classes) input: x (samples x descriptors) for calibration classes (samples x 1) classes numbers (must be >0) output: simca_model struct with: models (1 x No. classes) struct with: (one for each class) x (samples x... Platforms: Matlab

The Nucleic Acid Modeling Tool(NAMOT) is a program to allow users to manipulate molecular models of nucleic acids based on a set of reduced co-ordinates developed at Los Alamos National Laboratory and the Max Planck Institute for Biophysical Chemistry. Platforms: *nix

JMCAD is an program for the modeling and simulation of complex dynamic systems. This includes the ability to construct and simulate block diagrams. The visual block diagram interface offers a simple method for constructing, modifying and maintaining complex system models. The simulation engine... Platforms: *nix

With MeshMagic 3D, viewing and editing stl files has never been easier. Import STL files created with CAD and drafting software. You can then use MeshMagic to rotate and rescale the existing meshes. MeshMagic is an excellent 3D modeling program for viewing and editing STL files. The interface is... Platforms: Windows, Windows 8, Windows 7

Metamill is a professional UML modeling tool. Supports UML 2.4 standard. All 14 UML diagrams supported. Metamill packages can be stored independently as XMI files, e.g. under version management system. Python, ADA, Java, C, C++, C# and VB.Net source code can be round-trip engineered. RTF and HTML... Platforms: Windows, Windows 8, Windows 7, Windows Server

20-sim is an advanced modeling and simulation package for Windows. With 20-sim you can simulate the behavior of dynamic systems, such as electrical, mechanical and hydraulic systems or any combination of these. 20-sim models may use iconic diagrams, bond graphs, block diagrams as well as... Platforms: Windows

DDS-Lite is for ERD modeling, SQL script generation and forward engineering of relational databases. Enhanced Entity Relationship Diagram modeling allows you to design a fully relational database, complete with Cascading Referential Integrity Constraints, Indexes, Checks, Defaults and Unique... Platforms: Windows

DeKlarit is the only Model Driven tool that combines agile database modeling, declarative business rules, automatic code generation and seamless integration with Microsoft Visual Studio. DeKlarit is the unique data modeling and code generation tool that enables you to concurrently generate... Platforms: Windows

Do you need to design, visualize or document your database? ModelRight 3 can reverse engineer your existing database to get a graphical view of it, generate all the SQL statements to create the database, or synchronize your database model with the database to keep your design up to date.... Platforms: Windows