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         Bio-Informatics
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948 projects in result set. Projects sorted by: Ranking (Top Ranked First)
Select a page:   1   2   5   10   15   20   25   30   35   40   45   48   Next


1. 3D Genome Tuner - 3D Genome Tuner draws circular genome map and enables viewing multi-genomes in 3D context. It also provides genome analysis and sequence alignment, making it a powerful tool in genome studies and demonstrations.

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: OpenGL, Java Swing
  • Translations: English
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU Library or Lesser General Public License (LGPL)
  • Intended Audience: Science/Research
  • Development Status: 5 - Production/Stable

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2. 3D Viewer for Phylogenetic Trees - A 3D viewer for phylogenetic trees. Speciation events are displayed in the plane according to the species tree, while duplication events are displayed in the other dimension.


  • Topic: Bio-Informatics, Visualization
  • Translations: English
  • Programming Language: Python
  • Operating System: OS Independent (Written in an interpreted language)
  • Intended Audience: Science/Research

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3. 3v: Voss Volume Voxelator - Several RNA and protein structure volume calculation tools.

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Web-based, Command-line
  • Translations: English
  • Programming Language: C++
  • Operating System: OS X, Linux, OS Portable (Source code to work with many OS platforms)
  • License: GNU Library or Lesser General Public License (LGPL)
  • Intended Audience: Science/Research
  • Development Status: 7 - Inactive

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4. 5DT DataGlove Driver - A driver for the 5DT datagloves written in pure C++ using only the STL. Meant to be cross-platform, but written on and developed for IRIX sytems.

Click here to download.  
  • Topic: Graphics, Human Machine Interfaces, Visualization, Bio-Informatics, Hardware Drivers
  • Translations: English
  • Programming Language: C++, C
  • Operating System: SGI IRIX, OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Developers, Education, Science/Research
  • Development Status: 1 - Planning, 2 - Pre-Alpha

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5. A database for musem specimens - A Content Management System for collection data of taxonomic specimens. Organize your museum specimens, collection vouchers in one user-friendly database.


  • Topic: Front-Ends, 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, Education, System Administrators
  • Development Status: 4 - Beta
  • Database Environment: MySQL

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6. AAARF Genomic Repeat Investigation - AAARF, written in PERL and with numerous adjustable parameters, identifies sequence overlaps in small shotgun sequence datasets and walks them out to create long pseudomolecules representing the most abundant repeats in a genome.

Click here to download.  
  • Topic: Bio-Informatics, Genetic Algorithms
  • User Interface: Command-line
  • Translations: English
  • Programming Language: Perl
  • Operating System: OS X
  • License: GNU Library or Lesser General Public License (LGPL)
  • Intended Audience: Science/Research
  • Development Status: 3 - Alpha

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7. ABAC - Algorithmic Based Automatic Contiguation of Shot-gun sequences (ABACAS) is an integrated platform for quickly contiguating reference based assemblies.


  • Topic: Bio-Informatics
  • User Interface: Command-line
  • Programming Language: Perl
  • Operating System: OS X, Linux
  • License: GNU General Public License (GPL)
  • Intended Audience: End Users/Desktop
  • Development Status: 5 - Production/Stable

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8. ABACAS - Algorithm Based Automatic Contiguation of Assembled sequences (ABACAS) is an integrated platform for quickly contiguating reference based assemblies.

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Command-line
  • Programming Language: Perl
  • Operating System: OS X, Linux
  • License: GNU General Public License (GPL)
  • Intended Audience: End Users/Desktop
  • Development Status: 5 - Production/Stable

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9. Abeel Java Toolkit (AJT) - AJT is a set of utility classes for Java for handling some bioinformatics data, graphics file export, GUI widgets, and classes that should long have been added to the official Java API.

Click here to download.  
  • Topic: Software Development, Graphics, Bio-Informatics
  • User Interface: Other toolkit
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU Library or "Lesser" General Public License version 3.0 (LGPLv3)
  • Intended Audience: Science/Research, Developers
  • Development Status: 4 - Beta

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10. aCell - a framework to build data-driven models of biological cells


  • Topic: Bio-Informatics, Chemistry, Physics
  • Translations: English
  • Programming Language: Python
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Science/Research, Healthcare Industry
  • Development Status: 1 - Planning

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11. AcidMiner - Toolkit to examine the topology of a phylogenetic tree, place amino acid substitutions on specific branches, polarize them and compare amino acid sequences of homologous proteins to answer a wide range of questions about protein evolution.


  • Topic: Bio-Informatics
  • User Interface: Web-based, Console/Terminal
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language), OS Portable (Source code to work with many OS platforms)
  • License: BSD License
  • Intended Audience: Science/Research
  • Development Status: 4 - Beta
  • Database Environment: JDBC, Other API

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12. Adamant - Adamant is a java application for annotation of microarray array designs. The software enables MIAME-compliant annotation of sequences spotted onto arrays and can produce output files in MAGE-ML and other data formats used by public microarray data repos

Click here to download.  
  • Topic: Bio-Informatics
  • Programming Language: Java
  • Operating System: OS Portable (Source code to work with many OS platforms)
  • License: GNU General Public License (GPL)
  • Intended Audience: End Users/Desktop, Developers, Science/Research
  • Development Status: 4 - Beta

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13. ADF MAGE-ML Tool - In order to facilitate standardization and exchange of microarray layout, this project provides an ADF (Array design File))/MAGE-ML converter.

Click here to download.  
  • Topic: Bio-Informatics
  • User Interface: Command-line, Java SWT
  • Translations: English
  • Programming Language: Java
  • Operating System: Linux, OS Independent (Written in an interpreted language), All 32-bit MS Windows (95/98/NT/2000/XP), All POSIX (Linux/BSD/UNIX-like OSes), OS X, WinXP
  • License: OSI-Approved Open Source
  • Intended Audience: Science/Research
  • Development Status: 4 - Beta

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14. Adsat -- Sequence Analysis Tool - Automated Database-lookup and Sequence Analysis Tool for use specifically with BioPython. Used for obtaining Sequence and other Data from online databases and processing the data using open bioinformatics tools like BLAST and MEME.


  • Topic: Bio-Informatics
  • User Interface: GTK+
  • Programming Language: Python
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Advanced End Users, Developers, End Users/Desktop, Science/Research
  • Development Status: 2 - Pre-Alpha

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15. Agent-Based Multiscale Tissue Model - Agent-based multiscale model of cancer proliferation dynamics


  • Topic: Intelligent Agents, Simulations, Bio-Informatics, Molecular Science
  • 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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16. AgentCell - AgentCell is an agent-based model of cellular biochemical processes and biological behavior.

Click here to download.  
  • Topic: Simulations, Bio-Informatics
  • User Interface: Command-line
  • Translations: English
  • Programming Language: Java, 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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17. AgentQ - AgentQ is a project aimed at the development of virtual agents that mimic human intelligence and attributes (such as language or commonsense), as well as environments for these agents to learn and function in.


  • Topic: Simulations, Human Machine Interfaces, Bio-Informatics, Intelligent Agents
  • Programming Language: Python, Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: MIT License
  • Intended Audience: Science/Research

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18. aisconvert - Toolkit for processing genetic data in RAW (23andme) format. Currently supports (command-line): Half-IBD (Identity by descent) aka HIRs - between 2 or any number of files (in distances and cM); RAW2PED conversion; regions of homozygousity


  • Topic: Bio-Informatics, Molecular Science
  • User Interface: Java Swing, Command-line
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language), OS Portable (Source code to work with many OS platforms)
  • License: GNU General Public License (GPL)
  • Intended Audience: Advanced End Users
  • Development Status: 4 - Beta, 5 - Production/Stable

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19. AITools - This project is aimed at creating a set of highly universal AI tools to be used in AI modelling. So far the subject area includes: Neural Networks, Fuzzy Logic, Biological Methods, Genetic Computing. New tools will be devised as the project goes on.


  • Topic: Robotics, Modeling, Genetic Algorithms, Mathematics, Bio-Informatics, Artificial Intelligence
  • User Interface: Non-interactive (Daemon)
  • Translations: Ukrainian, English
  • Programming Language: Java
  • Operating System: OS Independent (Written in an interpreted language)
  • License: Academic Free License (AFL), GNU General Public License (GPL), GNU Library or Lesser General Public License (LGPL)
  • Intended Audience: Developers, Education, Information Technology, Science/Research
  • Development Status: 2 - Pre-Alpha, 1 - Planning
  • Database Environment: MySQL

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20. Akiva Discovery Manager - Discovery Manager for integrating components on CSF.


  • Topic: Bio-Informatics, Mathematics
  • Translations: English
  • Programming Language: Java, C++
  • Operating System: OS Independent (Written in an interpreted language)
  • License: GNU General Public License (GPL)
  • Intended Audience: Developers, End Users/Desktop, Other Audience
  • Development Status: 1 - Planning

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948 projects in result set. Projects sorted by: Ranking (Top Ranked First)
Select a page:   1   2   5   10   15   20   25   30   35   40   45   48   Next

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