EzBioNet 86 ezBioNet is a biological modeling and simulation tool of molecular interaction that occurred in a cell. We aim that this software can be used for collecting biological data and making biological models ...
Biological Corpus Collection 1.0 A collection of corpus and access routines for developing biological literature analysis systems.

GNU General Public License version 2.0 (GPLv2)
BioLayout3D 1.0 Tool for the visualisation and analysis of biological network or expression based data.

GNU General Public License (GPL)
CG Clustering 1.0 Biological sequence analysis module used in generating CG clusters. Useful for basic sequence manipulations, regular expression based searches, and base compositional analysis.

Academic Free ...
Biomolecule Toolkit For Linux 0.8.1 The Biomolecule Toolkit is a library for modeling biological macromolecules such as proteins, DNA and RNA. It provides a C++ interface for common tasks in computational structural biology to facilitate ...
Biomolecule Toolkit 0.8.1 The Biomolecule Toolkit is a library for modeling biological macromolecules such as proteins, DNA and RNA. It provides a C++ interface for common tasks in structural biology to facilitate the development ...
Seqool 1.0
Seqool 1.0 Seqool is a free (for educational use) sequence analysis software designed primarily for searching biological signals in nucleic acid sequences. The sequence analysis program package provides several ...
CombiStats 4.0 CombiStats is a computer program for the statistical analysis of data from biological dilution assays or potency assays. It can perform calculations according to Chapter 5.3 of the European Pharmacopoeia ...
My_kegg 1.0 Database built using kegg allowing to cross data from different biological analysis technics.

MIT License; Other License
CentiBiN 1. 4. 2002 CentiBiN is an application for the calculation and visualization of centralities for biological networks.
Features:
- Computing different vertex and graph centrality measures
- Visualize ...
Biological Relationship Builder 1.0 BIRBU (BIological Relationship BUilder) is a Java tool for microarray gene expression data analysis. BIRBU identifies biologically significant relationship between genes using microarray data and prior ...
Gene Set Enrichment Analysis 2.0 Gene Set Enrichment Analysis (GSEA) is a computational method that determines whether an a priori defined set of genes shows statistically significant, concordant differences between two biological states ...
Synthesizing Biological Theories (SBT) 1.0 This tool enables biologists and modelers to construct high-level theories and models of biological systems, capturing biological hypotheses, inferred mechanisms, and experimental results within the same ...
PaViAn For Windows 1.1 A Tool for Retrieval, Visualization and Analysis of biological Pathways. Import a Gene or Protein Set from any Excel file. Automatically find signaling Pathways from KEGG. Integrate your Data in Seconds ...
Kpiwara Pack 1.0 Software package for biological sequence analysis and better organization of the sequence data.Uses a modified version of alistat from Sean Eddy's group Squid package (http://selab.wustl.edu/cgi-bin/selab.
PaViAn 1.1 A Tool for Retrieval, Visualization and Analysis of biological Pathways. Import a Gene or Protein Set from any Excel file. Automatically find signaling Pathways from KEGG. Integrate your Data in Seconds ...
HASAS 1.7.0 HASAS (HydroAcoustic Signal Analysis System) is a modular system for passive sonar signal analysis. It can be used for biological research or surveillance, for example. The soundcard is used as input ...
R-BioC 1.0 Combo package wrapper for R under fedora.Including base key packages for biological data analysis.Minimal base packages for micro array analysis.

BSD License
BLASTgres 02282006 BLASTgres is a set of modules that can be added to PostgreSQL for data management of biological sequences. It extends PostgreSQL with datatypes for sequence information and middleware for dynamic access ...
Boakeity 1.0 A biobank registry system for handling data regarding human biological samples.

Apache License V2.0; BSD License; Common Development and Distribution License; GNU Library or Lesser General ...
Atlas Biological Database 1.0 A biological data warehouse that locally stores and integrates biological sequences, molecular interactions, homology information, functional annotations of genes, and biological ontologies.Website:http://bioinformatics.
ESMERALDA 1.20 ESMERALDA is a development environment for statisticalrecognizers operating on sequential data (speech, handwriting,biological sequences). It supports continuous density HiddenMarkov models, Markov chain ...
Moara Project 1.0 Moara is a project developed by BioComputing unit at Centro Nacional de Biotecnologia CNB-CSIC for the development of biological text mining tools.

GNU General Public License (GPL)
TaxaLt 1.0 TaxaLt is a desktop application for managing taxonomic and biological information. It combines features from ITIS (Integrated Taxonomic Information System) with community and ecosystem analysis tools.
Comparative Data Analysis Ontology 1.0 Research and development of an ontology for the analysis and representation of comparative data for use in evolutionary analysis. For more information, please see www.evolutionaryontology.org
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D-Tailor 1.0 Recent advances in DNA cloning and synthesis technologies afford high throughput implementation of designed sequences into living cells. However, our ability to design sequences to interrogate multifactorial ...
TinkerCell 1.1
TinkerCell 1.1 TinkerCell is a project aimed at collaborative modeling of biological systems. TinkerCell is a: - Drawing program for biological network design - Modular model construction program - Simulation platform ...
Biological Content Management 1.0 BioCM is Biological Content Manager: a Zope/Plone/Biopython product to manage, share and publish biological annotations on the web.

GNU General Public License (GPL)
BFRM For Windows 2.0 BFRM is a comprehensive implementation of sparse statistical models for high-dimensional data analysis, structure discovery and prediction.The framework of sparse latent factor modelling coupled with ...
SYNTHESYS NA-D 3.7 Itinerary Tool 1.0 Biological dataset cleaning tool. Detects most probable pathwayof biological collection expeditions, for data control.More on : http://synthesys.africamuseum.be

GNU General Public License (GPL)
BioImageXD For Linux 1.0RC1 BioImageXD - free open source software for analysis, processing and 3D rendering of multi dimensional, multi data channel, time series image data from microscopy and other sources.Features . 3D rendering ...
cruxcat 1.0
Cruxcat 1.0 Lightweight standalone software tool to enable molecular biologists, without bioinformatics support, to ask biological questions regarding to their CAGE data which can address the most relevant analysis ...
WEMBOSS 2.5.2 wEMBOSS is a web interface for the EMBOSS software package for biological sequence analysis. Under wEMBOSS each user has a private workspace where he can organize his work by creating projects and save ...
ArrayTrack (Non-FDA Network) 3.5
ArrayTrack (Non-FDA Network) 3.5 ArrayTrack™ provides an integrated solution for managing, analyzing, and interpreting microarray gene expression data. Specifically, ArrayTrack™ is MIAME (Minimum Information About ...
QDA-ANALYSIS Project 1.0 The QDA-ANALYSIS Project (working name) is oriented towards the development of a Qualitative Data Analysis Software.

GNU General Public License (GPL)
NetBuilder' - Apostrophe 1.0 NetBuilder' is a tool for building, visualizing, and simulating multi-layered biological networks, structured as hierarchical Petri-nets. It has a built-in stochastic simulator, but also provides ...
Tapping Test 2.0 Use: healthy life-style, sports, fitness, diagnostics of capacity for work, medical and biological researches. Only 25 seconds. It is psychological and physiological test for diagnostics a growth of overfatigue(not ...
ONDEX SABR 1.0 Systems Approaches to Biological Research (SABR) is a public funded initiative to support system biology in the UK. The ONDEX project got funded by SABR in 2008 for 3 years. This project tracks the development ...
ECognition Developer 8.6 eCognition Developer is a powerful development environment for object-based image analysis. It is used in earth sciences to develop rule sets (or applications for eCognition Architect) for the automatic ...
Spatio-Temporal Simulation Envirnoment 1.0 Spatio-temporal simulation environment (STSE) is set of tools used to perform spatio-temporal simulations, dedicated mainly to biological systems. Main development language is Python. Tools are currently ...
 
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