Gene Clusters Reliability

BCLUST is a small, simple, command prompt based tool specially designed to help you asses reliability of gene clusters from expression data by using consensus tree and bootstrap resampling method. Because of the rapid development of microarray technologies, many of statistical procedures, most...

IGBM (Identification of gene blocks in microorganisms) implements a BLAST-like method to infer conserved gene clusters among closely related prokaryotes, and provides a graphical user interface to navigate the identified clusters and their annotated info

GENE Graph Export Engine is an advanced XML exporter. GENE Graph Export Engine is a complex convertor/framework for multi-namespace XML transforming and exporting. It is able to convert various XML types including SVG, DocBook, MathML, XSL-FO, and their combinations into a wide area of output...


Platforms: *nix

OpenSSI Clusters for Linux project is a comprehensive clustering solution offering a full, highly available SSI environment for Linux. Goals for OpenSSI Clusters include availability, scalability and manageability, built from standard servers. Technology pieces include: membership, single root...


Platforms: *nix

This program is a parser that abstract a data structure from a given Entrez Gene record, and users of the parser can decide what to do/extract from the data structure. Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent,...


Platforms: Windows, Mac, *nix, Perl, BSD Solaris

Conrad is both a high performance Conditional Random Field engine which can be applied to a variety of machine learning problems and a specific set of models for gene prediction using semi-Markov CRFs.


Platforms: Windows, Mac, Linux

Disease Gene Profiler (DGP) comprises of a set of (bioinformatics) tools that can be used to identify the genes underlying susceptibility to common multifactorial diseases (such as diabetes, asthma and cancer) using freely available datasources.


Platforms: Windows, Mac, Linux

Provides a portable C++ API and implementation of WS-Reliability. Provides C++ message element classes and implements SOAP messaging using EasySoap. Uses Boost, expat, and optionally gSoap.Soon: Finite state machine protocol implementation.


Platforms: Windows, Mac, Linux

Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent, Parse::Yapp and Perl-byacc. Some can parse human genome annotations in minutes. Documentation and user guides are provided.


Platforms: Windows, Mac, Linux

The home of the Gene Ontology project on SourceForge, including ontology requests, software downloads, bug trackers, and much, much more.


Platforms: Windows, Mac, Linux

Gene-Environment iNteraction Simulator 2 (GENS2) simulates interactions among two genetic and one environmental factor and also allows for epistatic interactions. GENS2 is based on data with realistic patterns of linkage disequilibrium, and imposes no limitations either on the number of...


Platforms: Windows, Mac, Linux

GRaPe - a platform-independent software tool for building integrative gene-reaction-protein (GRP) networks. It generates the kinetic equations for each reaction and outputs a SBML document. It also implements two methods for parameter estimation.


Platforms: Windows, Mac, Linux

LiveGMS is a PHP/MySQL driven gene editor for the game Creatures 3 / Docking Station. It provides a platform independent online editor with most features other binary genetics editors have.


Platforms: Windows, Mac, Linux

a simple function that returns a colormap, C, for visualizing gene expression. C is just a N x 3 matrix [R G B] describing the range of color values.example usage: C = exp_colormap('blue-yellow',64); colormap(C);called without any arguments, it returns a [3 x 64] green-red colormap.options for...


Platforms: Matlab

This script uses the gene name field(s) in a table downloaded from the UCSC Genome Browser to add gene names to an existing SVS marker map saved in the DSM file format. Note: Though the following instructions specify downloading a table containing genes based on the Mar. 2006 (NCBI36/hg18) Human...


Platforms: Mac

The EJS Shapley's Globular Clusters Model shows the distribution of globular clusters around the plane of the Milky Way as determined by Harlow Shapley in 1918. The Space View frame shows a 3D view of the distribution of the clusters around the galactic plane, along with the location of the Sun...


Platforms: Mac

Build a gene network! The lac operon is a set of genes which are responsible for the metabolism of lactose in some bacterial cells. Explore the effects of mutations within the lac operon by adding or removing genes from the DNA. Sample Learning Goals: * Predict the effects on lactose...


Platforms: Mac

Caml is a general-purpose programming language, designed with program safety and reliability in mind. It is very expressive, yet easy to learn and use. Caml supports functional, imperative, and object-oriented programming styles. It has been developed and distributed by INRIA, Frances national...


Platforms: *nix

Bio::SAGE::Comparison module compares data from serial analysis of gene expression (SAGE) libraries. SYNOPSIS use Bio::SAGE::Comparison; $sage = Bio::SAGE::Comparison->new(); This module provides several tools for comparing data generated from serial analysis of gene expression (SAGE)...


Platforms: *nix

Bio::SAGE::DataProcessing module processes raw serial analysis of gene expression (SAGE) data. SYNOPSIS use Bio::SAGE::DataProcessing; $sage = Bio::SAGE::DataProcessing->new(); # open sequence and quality files open( READS, "library.fasta" ); open( QUAL, "library.qual.fasta" ); #...


Platforms: *nix