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DimReduction project provide an open-source multiplatform (Java) graphical environment for bioinformatics problems that supports many feature selection algorithms, pattern recognition techniques, criterion functions and graphic visualization tools.
SLEDRIDE: Simplified Learning about Expression Data Running in a Desktop Environment. To provide a general workbench for pipe-lining microarray gene expression data from supervised learning results into unsupervised learning methods.
This project is started out of the idea to simulate simple creatures like game of live. The goal is to build up an multi processor/host environment to simulate the building of simple live in given world environments.
A small java API library for running the MM3 molecular mechanics package from within a java environment. It does not include MM3, nor implement MM3. The MM3 binaries have to be available on the user system.
A novel stochastic simulation environment for biochemical modeling
UPDATE(2017-07-24) This repository has moved to BitBucket: https://bitbucket.org/parkinsonlab/cell-2017
Cell++ is a novel stochastic simulation environment which is capable of modeling diverse biochemical phenomena including signal transduction pathways, metabolic pathways and intracellular calcium signaling.
Mathematics, Chemistry and Bio-informatics semantic knowledge editor and simulation environment. It should serve as interactive science learning program or science classroom notebook and workshop.
A Folding@Home integrated monitoring environment, designed for Linux, *nix systems and Windows, which is intended to be easy-to-use and provide a flexible, customiseable and "user-friendly" environment for reviewing the status of active F@H clients.
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The BioArray Software Environment (BASE) v1.2 is a comprehensive free web-based database solution for the massive amounts of data generated by microarray analysis. PrognoChip-BASE extends BASE v1.2.16, providing more functionalities.
This project aims to develop a cross platform environment for utilisation of various open source and freely available molecular dynamics and bioinformatics tools. Some extra features are included such as protein hydrophobicity and hydrophilicity plots.
HyPhy is a comprehensive environment for maximum likelihood statistical analysis of genetic sequence data. It includes a large collection of out of the box analyses, a feature-rich graphical user interface for custom data analysis and a scripting languag
Biological Annotation Tool is a general-purpose high speed environment for manipulating biological sequence annotations in multiple input and output formats. A plugin-style API permits much extensibility.
RStatServer is a system for quickly developing and deploying web applications that integrate statistical computations and graphics. It is built using the Zope web application develeopment system and the open-source statistical data analysis environment R
The Neural Assembly Simulation Environment (NASE) is a collection of routines written in the Interactive Data Language (IDL) by Research Systems Inc. It provides routines to simulate neural networks and to visualize those networks' behavior.
Natural Evolution is a slow process. Today's computing technologies give us a chance to accelerate and explore it. The goal of this program is to provide hand-held evolution.
I already created some versions using Mac OS X's Cocoa environment.
This is a generalized rack widget written using the Gnome Canvas, which is specifically targeted for scientific operations (including Chemistry/Biology). The main purpose of the widget would to visualize standardized containers such as microtiter plates.
open SPEAR stands for open Simulator of Physical Environment for Agents Research. It is a C++ library designed to build efficient simulation of multi-agents and robotics simulation. The main audience for this project is the robotician/artificial life com