226 projects tagged "Bioinformatics"
Updated 21 Dec 2010
Biogenesis
| Pop | 43.58 |
|---|---|
| Vit | 3.76 |
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.
Updated 14 Feb 2008
HapCluster++
| Pop | 25.92 |
|---|---|
| Vit | 4.70 |
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).
Updated 05 Jul 2006
RepeatFinder
| Pop | 8.60 |
|---|---|
| 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.
Updated 04 Jul 2006
MyCGR
| Pop | 17.29 |
|---|---|
| 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.
Updated 03 Feb 2007
Bioclipse
| Pop | 52.13 |
|---|---|
| Vit | 2.79 |
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.
Updated 20 Jun 2006
JColorGrid
| Pop | 32.94 |
|---|---|
| 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.
Updated 28 Apr 2006
abi2xml
| Pop | 9.70 |
|---|---|
| Vit | 1.00 |
abi2xml is a command line utility to convert an ABI trace file to an XML file. ABI trace files contain DNA sequence data and are produced by ABI PRISM TM 377 DNA sequencers. This bioinformatics utility is written in C++ with the Qt library and is available for Windows, Mac OS, and Linux.
Updated 07 Jun 2007
octopus TDDFT
| Pop | 47.33 |
|---|---|
| Vit | 1.55 |
octopus is a program aimed at the ab initio virtual experimentation on a hopefully ever increasing range of systems types. Electrons are describe quantum-mechanically within the Density-Functional Theory (DFT), in its time-dependent form (TDDFT) when doing simulations in time. Nuclei are described classically as point particles. Electron-nucleus interaction is described within the Pseudopotential approximation.
Updated 07 Mar 2006
lazar
| Pop | 25.16 |
|---|---|
| Vit | 51.32 |
lazar (Lazy-Structure-Activity Relationships) is a tool for the prediction of toxic activities of chemical structures. lazar derives predictions from databases with experimental toxicity data. It searches in these databases for compounds with similar structures and calculates the prediction from their measured activities.
Updated 07 Mar 2006
ClusterControl
| Pop | 32.62 |
|---|---|
| Vit | 1.00 |
ClusterControl is a Web interface to simplify distributing and monitoring (bioinformatics) applications on Linux cluster systems. It is based on a modular concept that enables integration of command line oriented programs into the application framework of ClusterControl. The system enables integration of different applications accessed through one interface and executed on a distributed cluster system. It uses Apache, PHP, and OpenPBS or Sun Grid Engine.
