RSS 66 projects tagged "Bioinformatics"

Download Website Updated 26 Oct 2011 E-Cell System

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Pop 131.89
Vit 12.62

E-Cell System is an object-oriented software suite for modelling, simulation, and analysis of large scale complex systems such as biological cells. It allows many components, driven by multiple algorithms with different timescales, to coexist. The core library is written in C++ with a Python binding, and frontend software uses Python.

Download Website Updated 24 Sep 2007 Ghemical

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Pop 148.73
Vit 6.69

Ghemical is a molecular modelling software package with some nice 3D visualization tools. It supports methods based on both molecular mechanics and quantum mechanics (using MOPAC7, and MPQC for QM). The geometry optimization (for MM and QM) and molecular dynamics (for MM) algorithms are included. Ghemical is written in C++, and hopefully offers a good framework for a generic freeware molecular modelling tool.

Download Website Updated 28 Oct 2011 NAMD

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Pop 58.58
Vit 9.34

NAMD is a parallel, object-oriented molecular dynamics program designed for high-performance simulation of large biomolecular systems.

Download Website Updated 14 Feb 2012 VMD

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Pop 129.90
Vit 13.39

VMD (Visual Molecular Dynamics) is designed for the visualization and analysis of biological systems such as proteins, nucleic acids, lipid bilayer assemblies, etc. It may be used to view more general molecules, as VMD can read standard Protein Data Bank (PDB) files and display the contained structure. VMD provides a wide variety of methods for rendering and coloring a molecule: simple points and lines, CPK spheres and cylinders, licorice bonds, backbone tubes and ribbons, cartoon drawings, and others. VMD can be used to animate and analyze the trajectory of a molecular dynamics (MD) simulation. In particular, VMD can act as a graphical front end for an external MD program by displaying and animating a molecule undergoing simulation on a remote computer. VMD uses OpenGL and OpenGL Programmable Shading Language for high performance rendering of large structures.

Download Website Updated 02 Mar 2001 Mindy

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Pop 17.32
Vit 1.00

Mindy is a very simple serial molecular dynamics program derived from NAMD source code. It currently uses xplor parameter and structure files. The program is written in very straightforward C++.

Download No website Updated 26 Jun 2001 EASEA

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Pop 45.25
Vit 1.42

EAsea Specification of Evolutionary Algorithms (EASEA), is a high-level language dedicated to the specification of evolutionary algorithms. The language and compiler are quite mature. EASEA compiles .ez specification files into C++ or Java object files, using existing evolutionary libraries. Supported C++ libraries currently are GALib or EO.

Download Website Updated 10 Jul 2009 Open Babel

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Pop 97.55
Vit 5.30

Open Babel is a community-driven scientific project including both cross-platform programs and a developer library designed to support molecular modeling, chemistry, and many related areas, including interconversion of file formats and data.

No download Website Updated 19 Feb 2002 SLRI Bioinformatics Workshop

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Pop 10.44
Vit 66.69

The Samuel Lunenfeld Research Institute (SLRI) Bioinformatics Toolkit is a mainly C-based cross-platform toolkit for dealing with biological information, especially protein structure/function information. It is based on the NCBI Toolkit.

Download Website Updated 29 Mar 2002 KPumpe

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Pop 27.57
Vit 1.00

KPumpe is a diabetes diary application with support for reading records from your glucometer. It supports the Onetouch Ultra and other glucometers where glucomodule plugins are available.

Download No website Updated 30 Mar 2005 libGenome

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Pop 19.29
Vit 2.00

libGenome is a development library designed to make common operations on DNA and protein sequences easy. libGenome provides functionality to read and write sequence and annotation data in several file formats. It provides a common manipulation interface for sequence and annotation data in any supported file format. Some of the basic manipulation functionality offered by libGenome is concatenation, truncation, reverse complementation, and translation of sequences. It was intended to be used on genome size sequences and is optimized accordingly. This is a cross platform library written in ANSI C++ and is currently supported on any platform with gcc. Metrowerks CodeWarrior on Windows and Mac OS are also supported.

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MOSIX

A cluster operating system.

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Univention Corporate Server

A server operating system with an integrated identity and infrastructure management system.