228 projects tagged "Bioinformatics"

No download Website Updated 20 Jun 2006 JColorGrid

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Pop 28.77
Vit 1.75

JColorGrid is an application for graphical data exploration and the rendering of colorgrids, a generalization of the popular heat-map representation. The software exists as a command-line application, a graphical viewer, and an API for development.

Download Website Updated 03 Feb 2007 Bioclipse

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Pop 44.99
Vit 2.77

Bioclipse is a rich-client platform chemistry and biology workbench. It provides access to many open source bioinformatics and chemoinformatics toolkits and has plugins for the Chemistry Development Kit, JChemPaint, Jmol, and BioJava.

No download Website Updated 04 Jul 2006 MyCGR

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Pop 17.58
Vit 1.00

MyCGR implements the research of the thesis of Peggy Cénac regarding the use of CGR (Chaos Game Representation) to build a new family of tests for the structure of sequences. It can empirically check the level and power of the tests and apply them on DNA sequences. It can generalize the dinucleotide abundance profile to a CGR-based relative abundance profile and use this profile on DNA sequences to build taxonomy trees and to define CGR-trees.

Download Website Updated 05 Jul 2006 RepeatFinder

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Pop 11.83
Vit 1.00

RepeatFinder is a console-based bioinformatics tool that searches for repeating stretches of DNA. It allows mismatches, but enforces a one to one mapping between sections of DNA and a repeat motif, meaning that a section of DNA cannot be associated with more than one match.

Download Website Updated 14 Feb 2008 HapCluster++

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Pop 24.37
Vit 4.62

HapCluster++ is a software package for linkage disequilibrium mapping using coalescent theory. It is based on a Bayesian Markov-chain Monte Carlo (MCMC) method for fine-scale linkage-disequilibrium gene mapping using high-density marker maps. HapCluster++ is a C++ implementation of the method described in the paper "Fine Mapping of Disease Genes via Haplotype Clustering" by E.R.B. Waldron, J.C. Whitaker, and D.J. Balding. Genetic Epidemiology. 30: 170–179. (2006).

Download Website Updated 21 Dec 2010 Biogenesis

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Pop 37.71
Vit 3.38

Biogenesis simulates in a visual fashion the processes involved in the evolution of unicellular organisms in nature. It tries to be a didactic approximation to the ideas of mutation or evolution, and can be enjoyed also as an entertainment. It's intended to serve as a support to show students some basic biological facts. The idea of Biogenesis is taken from Primordial Life, but it's an independent project.

No download Website Updated 25 Jul 2006 GRIDportal

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Pop 22.80
Vit 1.00

GRIDportal is a Web-based application portal that acts as a frontend to GRID computing. Its aim is to make common GRID applications like Abaqus, Matlab, or BLAST more accessible to the user. Use of GRIDportal does not require any knowledge of Unix nor GRID computing whatsoever. All the user needs to know is how to use the given application, so the step from desktop computing to GRID computing should thus become a much smaller one than it otherwise would be.

No download Website Updated 27 Aug 2006 PROMPT

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Pop 9.38
Vit 1.00

PROMPT is a system for retrieval, analysis, mapping and comparison of protein sets. It allows easy mapping of different types of sequence identifiers, automatic data retrieval and integration, many analysis and comparison algorithms, and a full-featured GUI application. Exhaustive statistical tests are conducted automatically in appropriate cases, but can be performed manually. All analysis results can be viewed or visualized and exported in various formats. All methods can be used in your own Java code or with beanshell scripting in your own scripts, a pipeline, or grid systems.

Download Website Updated 04 Sep 2006 Transmuter Programming Language

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Pop 22.69
Vit 1.00

Trans (short for Transmuter Programming Language) is an extremely dynamic, biologically-inspired prototyping language providing a framework for experimenting with naturally evolving systems of objects over the net, and for exploring new ideas about recombinant software, code morphing, and evolutionary programming. Trans is also a very capable general-purpose programming language. It's fast, flexible, compact, object-oriented, highly extensible, and easy-to-learn. It can be used for rapid prototyping, or as a scripting language, an embedded language, a network server or client, a system of cooperating network nodes, a real-time control and monitoring system, and more.

Download Website Updated 21 Dec 2006 QuteMol

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Pop 33.85
Vit 2.03

QuteMol is an interactive, high-quality molecular visualization system. QuteMol exploits the capabilites of current GPUs through OpenGL shaders to offer an array of innovative visual effects. QuteMol visualization techniques are aimed at improving clarity and an easier understanding of the 3D shape and structure of large molecules or complex proteins.

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Open Camera

A camera app for Android.

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mcl-edge

A command-line network analysis workbench.