MAIA is a software package for automatic processing of the one- and two- (typically, Cy3-green/Cy5-red) color images produced in cDNA, CGH (comparative genome hybridization) or protein microarray technologies. It incorporates the following modules
Gepasi simplifies the task of model building by assisting the user in translating the language of chemistry (reactions) to mathematics (matrices and differential equations) in a transparent way.
Bayesian Analysis of Gene Expression Levels (BAGEL): a program for the statistical analysis of spotted microarray data.
CoCoA is a client-server application. The server is based on CoCoALib, a C++ library, which is available under GPL v3 license.
French-English Dictionary by Ultralingua is a dictionary and verb book for students and travelers, offering thousands of entries including slang, technical terms, and idiomatic expressions. Includes a full verb conjugations in all tenses and the con
enables investigators to explore and analyze all types of geneexpression data on all major operating systems
BioPerl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications.
ArrayMiner® is a set of analysis tools using advanced algorithms to reveal the true structure of your gene expression data.
MrBayes is a program for the Bayesian estimation of phylogeny. Bayesian inference of phylogeny is based upon a quantity called the posterior probability distribution of trees, which is the probability of a tree conditioned on the observations.
EPE is a visual editor designed for annotation, visualisation and presentation of wide variety of biological networks, including metabolic, genetic and signal transduction pathways.
ProteoWizard is a modular and extensible set of open-source, cross-platform tools and software libraries for proteomics data analysis.
Evaluate the statistical significance of differential gene expression based on microarray data
a tool for exploring the topology and other features of membrane proteins by means of hydropathy plots based upon thermodynamic and biological principles.
Maxima is a fairly complete computer algebra system written in lisp with an emphasis on symbolic computation.It is based on DOE-MACSYMA and licensed under the GPL.
Bioclipse is based on the Eclipse Rich Client Platform (RCP) which means that Bioclipse inherits a state-of-the-art plugin architecture, functionality, and visual interfaces from Eclipse.
MolPOV is a graphics file converter that reads Brookhaven Protein Data Bank format files
MEGA is an integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web-based databases, estimating rates of molecular evolution, and testing evolutionary hypotheses.
The Integrated Genome Browser (IGB, pronounced Ig-Bee) is an interactive, zoomable, scrollable software program you can use to visualize and explore genome-scale data sets
The Bayesian Filtering Library (BFL) [ref] provides an application independent framework for inference in Dynamic Bayesian Networks
The PDB through Microsoft Windows, or WPDB for short, is a Microsoft Windows 3.1 Windows95 and Windows NT (client and server) based program to interrogate the 3-dimensional structure of biological macromolecules as found in the Protein Data Bank(PDB)
Program for molecular graphics visualisation originally developed by Roger Sayle
Haploview is designed to simplify and expedite the process of haplotype analysis by providing a common interface to several tasks relating to such analyses.
Detailed analysis of selection on amino acid properties using user-defined phylogenetic trees.
ENIGMA is a software tool to extract gene expression modules from perturbational microarray data, based on the use of combinatorial statistics and graph-based clustering.
VisIt is a free interactive parallel visualization and graphical analysis tool for viewing scientific data on Unix and PC platforms.
E-Cell Project is an international research project aiming to model and reconstruct biological phenomena in silico, and developing necessary theoretical supports, technologies and software platforms to allow precise whole cell simulation.
AssociationViewer is a Java application used to display SNPs in a genetic context. Supplementary data (such as genes or LD plots) is downloaded from various public data sources on the fly and saved locally in a cache.
possesses some chemical intelligence for recognizing detailed atom types, hybridization and chemical environments, which is necessary for converting simpler formats
An application for computing file deltas and later applying those deltas to reconstruct (patch) files. The DELTA Algorithm works well on all types of files, not just text files.