228 projects tagged "Bioinformatics"

Download No website Updated 30 Mar 2005 libGenome

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Pop 21.26
Vit 1.99

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.

Download Website Updated 11 Mar 2005 Molevolve

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Pop 15.17
Vit 1.00

Molevolve is a library for running a genetic algorithm to model the 3-dimensional structures of peptide chains from amino-acid sequences. The client code can specify its own peptide chain model, fitness functions, and GA operations.

Download Website Updated 01 Feb 2005 mozCellML

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Pop 16.49
Vit 2.01

mozCellML is a Mozilla based CellML tool. It can be used to edit boundary conditions, integrate models (using a Runge- Kutta method), and fit parameters to models (using Levenberg-Marquardt). It supports both CellML 1.0 and CellML 1.1 documents.

Download Website Updated 29 Jan 2005 ProteomeCommons.org IO Framework

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Pop 21.45
Vit 1.42

ProteomeCommons.org IO Framework is a proper Java framework for handling spectra and peak lists. The framework can read and write to a number of different spectra and peak list formats, and it provides a simple, intuitive Java object model for working with spectra or peak lists. All classes support two methods of handling peak list and spectrum data: in-memory or stream. The goal of this framework is to support all the popular MS and MSMS data formats, and to eliminate any time or effort involved in figuring out how to read and write peak list or spectrum files.

Download Website Updated 17 Jan 2005 ProteomeCommons.org Java Analysis Framework

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Pop 19.36
Vit 1.00

ProteomeCommons.org Java Analysis Framework is a framework for referencing common mass spectrometry data such as atoms and residues. This framework provides a programmer with an easy-to-use library for writing programs that rely on common mass spectrometry data. The framework also contains utilities such as an isotope calculator and a reference for residue abbreviations.

Download Website Updated 29 Dec 2004 Genome-Tools

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Pop 22.18
Vit 1.49

Genome-Tools provides flexible tools and a simple API for genomic sequence processing on genomes published in the standard Genbank format. A CGI-based Web interface is also available.

Download Website Updated 02 Dec 2004 SIGHT

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Pop 36.33
Vit 2.18

SIGHT is a code generator set to create a user-defined system of Web robots, realising arbitrary workflow. It generates Web robots that can be based on Stalker algorithm, HTML structure, etc. This task is frequent in bioinformatics.

Download Website Updated 08 Nov 2004 open SPEAR

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Pop 9.06
Vit 59.06

open SPEAR stands for open Simulator of Physical Environment for Agents Research. It is a C++ library designed to build an efficient multi-agents and robotics simulation. The main audience for this project is the robotics/artificial life community.

No download Website Updated 02 Nov 2004 Cactus

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Pop 151.00
Vit 3.46

Cactus is a general, modular, parallel environment for solving systems of partial differential equations. The code has been developed over many years by a large international collaboration of numerical relativity and computational science research groups and can be used to provide a portable platform for solving any system of partial differential equations.

Download No website Updated 01 Nov 2004 AntFlow

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Pop 56.84
Vit 1.00

AntFlow builds upon Apache Ant to provide a new approach to simplifying system automation that uses pipelines of hot folders chained together to perform a given task. Using XML, it associates an automated task such as data transfer, encryption, or XML processing with a directory on the local system. Whenever a file is copied or written into the hot folder, the associated task is executed and the file is moved to the next hot folder in the pipeline for further processing.

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Open Camera

A camera app for Android.

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mcl-edge

A command-line network analysis workbench.