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         Bio-Informatics
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948 projects in result set. Projects sorted by: Ranking (Top Ranked First)
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681. Phycas - A python/C++ framework for Bayesian phylogenetic analysis.


  • Topic: Simulations, Bio-Informatics
  • User Interface: Console/Terminal
  • Programming Language: Python, C++
  • Operating System: Vista, WinXP, OS X, Linux
  • License: GNU General Public License (GPL)
  • Intended Audience: End Users/Desktop, Developers
  • Development Status: 3 - Alpha

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682. PhyCon - Phylogenomic Constructor - PhyCon is a program designed to deal with large amounts of sequence sets in constructing phylogenetic trees. PhyCon uses the programs ClustalW, ModelTest and PAUP* to align sequences, infer substitution models and construct phylogenetic trees.


  • Topic: Bio-Informatics
  • User Interface: Tk
  • Translations: English
  • Programming Language: Perl
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 5 - Production/Stable

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683. PhyloCpp - PhyloCpp is (will be...) a C++ toolkit designed for the reading, writing and manipulation of phylogenetic trees with an emphasis on comparative methods, ancestral state reconstruction and characterization of the evolutionary process.


  • Topic: Bio-Informatics
  • User Interface: Cocoa (MacOS X), Win32 (MS Windows), X Window System (X11)
  • Translations: English
  • Programming Language: C++
  • Operating System: OS Portable (Source code to work with many OS platforms)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 2 - Pre-Alpha

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684. phylogene - A collection of novel phylogenetics algorithms that assists biologists, geneticists, and bioinformaticians in the analysis and interpretation of phylogenetic data.


  • Topic: Bio-Informatics
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: Academic Free License (AFL)
  • Intended Audience: Science/Research
  • Development Status: 3 - Alpha

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685. Phylogenomic Investigator - We have developed a new approach for accurately describing differences in gene content between groups of related species implemented in the Phylogenomic Investigator


  • Topic: Bio-Informatics
  • Programming Language: Perl
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 3 - Alpha

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686. PhyloPattern - PhyloPattern is a Java/Prolog API, helpful to simulate human reading of phylogenetic trees. Bioinformatician can: annotate trees, apply complex patterns to a tree to search specific architectures or extract information, compare trees with dynamically gen

Click here to download.  
  • Topic: Bio-Informatics
  • Programming Language: Prolog, Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Developers, Science/Research
  • Development Status: 5 - Production/Stable

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687. PhyloSort - PhyloSort sorts phylogenetic trees by searching for user-specified subtrees that contain a monophyletic group of interest defined by operational taxonomic units.

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Command-line, Java Swing
  • Translations: English
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 1 - Planning
  • Database Environment: Flat-file

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688. Physis - Alife research platform to study the evolvability of different assembly-like computer languages. It's similar to Tierra and Avida but it's designed to be more general.

Click here to download.  
  • Topic: Artificial Intelligence, Bio-Informatics
  • User Interface: Win32 (MS Windows), X Window System (X11)
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language), 32-bit MS Windows (95/98), All POSIX (Linux/BSD/UNIX-like OSes), All 32-bit MS Windows (95/98/NT/2000/XP)
  • License: GNU General Public License (GPL)
  • Intended Audience: Developers, Other Audience
  • Development Status: 5 - Production/Stable

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689. Piazzas - Piazzas is an open source project that contains a collection of different sub projects. Projects in Piazzas aim to develop frameworks based on different usage and design patterns in different domains in order to faciliate software development.


  • Topic: Bio-Informatics, Design, Frameworks
  • Programming Language: C#, Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU Library or Lesser General Public License (LGPL), GNU General Public License (GPL)
  • Intended Audience: Information Technology, Science/Research, Developers
  • Development Status: 4 - Beta

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690. Pick List Editor - The goal of Picklist Editor is to display and modify pick lists before spot picking (in proteomics).


  • Topic: Bio-Informatics
  • User Interface: Java Swing
  • Translations: English
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: End Users/Desktop
  • Development Status: 5 - Production/Stable

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691. pISTil - pISTil (a Pipeline for Interaction Sequence Tag identification and analysis) is a collection of scripts, and programs - running on both Linux and MacOS X systems - for fast analysis of large yeast two-hybrid sequence datasets.

Click here to download.  
  • Topic: Bio-Informatics
  • Programming Language: PHP, Perl
  • Operating System: All POSIX (Linux/BSD/UNIX-like OSes), All BSD Platforms (FreeBSD/NetBSD/OpenBSD/Apple Mac OS X)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 5 - Production/Stable
  • Database Environment: PostgreSQL (pgsql)

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692. Plasmidb - "Plasmidb" is a database management system (RDMS) used to manipulate, view and store molecular biology information rapidly and easily. Editable information includes: constructed plasmids, clones, standard vectors, primers, antibiotics, enzymes and more

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Web-based
  • Translations: English
  • Programming Language: PHP
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 3 - Alpha
  • Database Environment: PHP Pear::DB

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693. platestats - The platestats software aims to provide a convenient solution for analyzing the results of biological assays performed in 96- and 384-well plates.


  • Topic: Information Analysis, Bio-Informatics, Chemistry
  • User Interface: Command-line, Qt
  • Programming Language: C++
  • Operating System: OS Portable (Source code to work with many OS platforms)
  • License: BSD License
  • Intended Audience: Science/Research
  • Development Status: 3 - Alpha

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694. POA - POA is Partial Order Alignment, a fast program for multiple sequence alignment in bioinformatics. Its advantages are speed, scalability, sensitivity, and the superior ability to handle branching / indels in the alignment.

Click here to download.  
  • Topic: Bio-Informatics
  • Programming Language: C
  • Operating System: OS Portable (Source code to work with many OS platforms)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 5 - Production/Stable

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695. PPlot - PPLOT is a small software package for the multiple testing problem. It contains 2 routines to be used for the correction of p-values derived from multiple univariate statistical tests (t-tests, F-tests etc.).


  • Topic: Bio-Informatics, Mathematics
  • Programming Language: MATLAB
  • Operating System: OS Independent (Written in an interpreted language)
  • License: Open Software License 3.0 (OSL3.0)
  • Intended Audience: Science/Research
  • Development Status: 6 - Mature

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696. Praxiteles - Praxiteles is a cross-platform interactive visualization tool for comparative genome map data. It is particularly well-suited to viewing multiple related genomes or chromosome segments that have highly diverged gene content and order.

Click here to download.  
  • Topic: Bio-Informatics
  • Programming Language: Java
  • Operating System: OS Portable (Source code to work with many OS platforms)
  • License: BSD License
  • Intended Audience: Science/Research
  • Development Status: 2 - Pre-Alpha

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697. Prequips - A Java-based tool to visualize, integrate and analyze LC-MS/MS proteomics data.

Click here to download.  
  • Topic: Bio-Informatics, Chemistry, Visualization, Molecular Science
  • User Interface: Java SWT, Eclipse
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU Library or Lesser General Public License (LGPL)
  • Intended Audience: Advanced End Users, Science/Research
  • Development Status: 4 - Beta
  • Database Environment: JDBC

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698. PRIDE - PRIDE: PRoteomics IDEntifications database. Please note that the PRIDE project has relocated to http://code.google.com/p/ebi-pride

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Web-based
  • Translations: English, French, German, Korean
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: Apache Software License
  • Intended Audience: Science/Research
  • Development Status: 5 - Production/Stable
  • Database Environment: MySQL, Oracle

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699. PRIDE venndiagram experimcomparison tool - Venndiagram comparison for ProteinExperiments in the PRIDE Database


  • Topic: Bio-Informatics, Database
  • User Interface: Web-based, Java Swing
  • Programming Language: PL/SQL, JSP, JavaScript, Java
  • Operating System: OS Portable (Source code to work with many OS platforms)
  • License: GNU General Public License (GPL)
  • Intended Audience: End Users/Desktop, Science/Research, Developers
  • Development Status: 4 - Beta
  • Database Environment: JDBC

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700. Primer3 - PCR primer design tool - Design PCR primers from DNA sequence. Widely used (190k Google hits for "primer3"). From mispriming libraries to sequence quality data to the generation of internal oligos, primer3 does it. C&perl. Developers/testers/documenters needed.

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Web-based, Command-line
  • Programming Language: C, Perl
  • Operating System: All POSIX (Linux/BSD/UNIX-like OSes), 32-bit MS Windows (NT/2000/XP), OS Portable (Source code to work with many OS platforms)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research
  • Development Status: 5 - Production/Stable, 4 - Beta

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948 projects in result set. Projects sorted by: Ranking (Top Ranked First)
Select a page:   Previous   1   5   10   15   20   25   30   34   35   36   40   45   48   Next

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