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Predyketide is a stand-alone desktop application which provides a way to observe the resulting structure per elongation of the polyketide chain, and predict the most possible natural product structure. This tool can be helpful in the discovery of new drugs requiring lesser time and effort.
The project uses the cdk v.1.5 and cdk-jchempaint-26.
RandTree is a MatLab based tree simulator program where the algorithm is based on Honda's model. We have used probabilistic generation of branches in order to simulate visually realistic tree structures.
This program is designed to generate branching structures with bifurcation branching pattern (sympodial branching). By changing the probabilities and branching angles, you can generate different shapes of trees.
General purpose discrete event simulation (DES) framework for the Python programming language. Khronos gathers ideas from other simulation software and tries to provide a simple and poweful toolset for simulation of discrete systems.
This is a C++ library to create and simulate standard and hybrid bond graph. The library support XML input and output of the bond graph structure. Graphic representation of the bond graph in SVG are generated using the Graphviz library.
VarPlan is a web application to visualize and manage variants as tree like graph view. The approach is to keep the overview on hundreds of variants with their meta informations.
Guanxi is a robust analysis and simulation application for Social Network Analysts. Guanxi allows researchers in the field to create, import, and export an endless array of networks, analyze their structure, and run custom dynamics over them.
BARNACLE is a Python library for RNA 3D structure prediction. It can be used for probabilistic sampling of RNA structures that are compatible with a given nucleotide sequence and that are RNA like on a local length scale.
...The role of water on folding under different environments is studied through visualization results. It acts as a tool to visualize the folding of an amino acid sequence into a 3D protein structure.
RAINIER: Rapid Automated Inference of Nucleic-Acid Interaction Energy using Refinement
RAINIER is a protein simulator that can predict the interface structure of DNA- and RNA-binding proteins, using statistical and physical techniques.
A topological data structure to handle 2D, surfaces and 3D simplicial meshes. This data structure is implemented in C++ using templates. It is based on Corner-Table and CGAL data structure.
A topological data structure to handle 2D simplicial meshes (using the Morse operators published by authors). This data structure is implemented using C++ and it is based on the classical Half-Edge. This code started in 2002 and it has been used in many
BabyTALK is to add another brick in the wall of natural languages learning. The baby needs to structure a corpus of texts when his tutor points and talks about a particular part of the corpus. The baby is also to describe any selected part of the corpus.
Agent based model of organizations considering the interplay between the formal hierarchical structure and the process network emerging while the organization performs a task-set.
OOPS means Open Protein Simulator, it is a program designed to serve as a test bed for different algorithms for protein folding, dynamics and structure prediction. OOPS is based on a plugin architecture that makes it highly modular and extensible.
There remains a need for an open, freely distributable Power Systems Analysis Package. This project aims to provide the underlying structure and APIs on which such projects can be built
Jef-X willl come to be a very usefull platform independent tool to help enginers to calculate 3D spatial porch using springs, bars and frames (the finite elements). It uses JavaScript and XML to build and run structure objects.
...This project aims to develop open modular robotic framework envisioned as a universal, robust, and low cost alternative to a variety of specialized robots with fixed body structure and functions.