STREAM - Static Thermodynamic REgulAtory Model of transcription, is a bioinformatics application for researchers, who want to model the transcriptional regulation of a specific gene and predict its transcriptional output in different situations. http://streamtr.googlecode.com/svn/trunk/Images/log...

scripts and tools to process and analyze bioinformatics data 1. BLAST parser

This project hosts the *PSICQUIC Reference Implementation*. If you find a bug, [http://code.google.com/p/psicquic/issues/list report it]. If you need help or have questions, [http://groups.google.com/group/psicquic ask them]. = What is PSICQUIC? = PSICQUIC is an effort from the [http://www...

Annotare is a tool for annotating Microarray and Gene Expression data. It will help a bench biologist construct a MIAME-compliant annotation file based on the MAGE-TAB format. === Install Annotare in for Windows or Mac OS=== ====Requirements==== # Java 1.5 or above # AIR running time 1.5.2 o...

*Biological Web Services Proxy* allows to make [http://java.sun.com/developer/technicalArticles/WebServices/restful/ REST] requests to several biological web services available on Internet. The response of the services is processed and then returned in JSON format. The main goal of the proxy is to a...

Foliage is a software library for efficiently constructing ancestral recombination graphs in memory. It aims to facilitate the implementation of various algorithms and statistical analysis by providing a coherent API for the graphs. It is also capable cropping the graphs along the genome coordinates...

WebLogo (http://code.google.com/p/weblogo/) is a tool for creating sequence logos from biological sequence alignments. It can be run on the command line, as a standalone webserver, as a CGI webapp, or as a python library. The main WebLogo webserver is located at http://bespoke.lbl.gov/weblogo...

bioinformatics stuffs. any feedback or contributions would be *greatly* appreciated i can move code to github/bitbucket to facilitate that if it helps: *NOTE*: as of 2009/10/13 some modules which previously lived here have been moved to [http://bitbucket.org/brentp/biostuff/ bitbucket] * bio...

= Abstract = Combining experimental and theoretical approaches to enlighten the functioning of molecular processes in the cell is a main goal in systems biology. Theoretical modelling of biological systems in particular will become more and more important to reduce wet lab experiments for target ...

*Biological Web Service Library* is a JavaScript library to communicate with several web services that provide biological information. The goal of the library is to facilitate this communication making easy to add relevant biological information to any web site. This library combined with the oth...