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ParticleStats is software for analysing tracked particles from RNA Localization experiments. Analysis is performed on the X and Y coordinated of the tracked RNA particles
Disloki is a modified version of Loki (loki.homeunix.net) which works as a Boinc application. The project also contains support programs to create and maintain a Loki based boinc project.
PARs is a bioinformatics tool for the analysis of cis-regulatory DNA sequences. Composed of two parts: a suite of sequence analysis algorithms for predicting cis-binding sites in DNA sequences and a GUI for visualisation and exploration of the results.
MetaPepSeq is metaserver for protein identification in Mass Spectrometry Experiments. It helps joining the power of Mascot and de novo sequencing algorithms by merging together into one tool.
DrPangloss is a python implementation of a three operator genetic algorithm, complete with a java swing GUI for running the GA and visualising performance, generation by generation
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Biological Annotation Tool is a general-purpose high speed environment for manipulating biological sequence annotations in multiple input and output formats. A plugin-style API permits much extensibility.
A repository of Python extension scripts for use with the Sparky (http://www.cgl.ucsf.edu/home/sparky) NMR assignment package. No packaged releases yet, but there are scripts in the Sourceforge CVS@ http://sparkyscripts.cvs.sourceforge.net/sparkyscripts
Cellogica is a cellular logic analysis tool. It incorporates sequential logic and finite state machine to elucidate the relationship between transcription factors and corresponding gene expression.
BioMa is a specimen based Biodiversity database Manager. It is designed to store, organize, and manipulate biodiversity-related scientific data, either for the purposes of museums, scientific collections, or research projects.
Cleaver is a program for comparing restriction endonuclease digests of orthologous DNA sequences from different taxa. It performs virtual restriction digests and searches for endonucleases that cleave DNA fragments from given taxa but not others.
SeqFreed is a bioinformatics desktop. It provides efficient access to sequence data and gene features, a customizable command line interface to locally installed bioinformatic tools and flexible display of either text or images in different page modes.
RStatServer is a system for quickly developing and deploying web applications that integrate statistical computations and graphics. It is built using the Zope web application develeopment system and the open-source statistical data analysis environment R
QTL Reaper analyzes data from progeny of a genetic cross in experimental plants or animals. It seeks the location of genes that affect a heritable trait, and it is specially designed for analysis of gene expression measurements.
openSputnik is a robust distributed platform for massive scale precalculation of genetic and genomic data using contemporary bioinformatics methods. Annotated DNA, RNA and protein sequences are stored as binary objects in a variery of relational database
DNAID software is a tool for assessing confidence in biological identifications made by comparing DNA sequences. It allows DNA sequences to be placed within a taxonomy and determines confidence in matches of a query sequence to each taxon.
A dialect of XUL implementing most of Mozilla XUL's Fourth Draft. XML User Interface Language (XUL) is a method for easily creating GUI applications. Lux XUL supports Python scripting via Jython 2.1.