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OpenDMAP (Open Source Direct Memory Access Parser) is a natural language processing (text mining) application: a semantic parser for information extraction.
SLEDRIDE: Simplified Learning about Expression Data Running in a Desktop Environment. To provide a general workbench for pipe-lining microarray gene expression data from supervised learning results into unsupervised learning methods.
Avenzoar is a one-year exploration of renal cell carcinoma morphology and its related single nucleotide polymorphisms (SNPa) as a method of automating diagnosis of cancer by using a computer-aided decision tree controlled by analytical statistics.
SBMLforge is a tool that enables the user to convert and merge KEGG metabolic and signaling pathways (KGML format) to create a single SBML pathway model.
Java-based number generator package. Includes several strategies, apart from the usual random: constant, serial, function, composite.
Besides, generators can be wrapped in different filters to obtain modified data series.
The Neurpheus Morphological Analyser performs morphological analysis, stemming or word form generation tasks using sophisticated classification methods for an analysis of words unseen in a training dictionary.
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DEPRECATED PROJECT! SolexaTools is becoming the SeqWare project (http://seqware.sourceforge.net) to better reflect its expanded sequencer support. Please go to this project page for code and documentation.
T3D2 - Terrain Track Thermal Data Displayer. Takes 3D GPS tracks and displays the flights over 3D Digital Elevation Data along with pixel data mapped over the terrain. Analyzes the flight for thermals. Checks if a pilot flew optimal.
EasyGIS simplifies GIS data management, sharing, and publishing. REST interfaces (json, html views). Lucene based FTS searches. Thematic maps, business cartography. Integration with external GIS data providers - Google, OSM.
JAMBLAST: Java Application Manager for the ncbi BLAST results. It is a graphic application that allow the user to display, filter, sort, import/export, store/manage BLAST results produced with the NOBLAST (https://sourceforge.net/projects/noblast).
A cross platform Open Source implementation of Digi's "Digi Discovery" utility as well as a Java library providing the features of the ADDP (Advanced Digi Discovery Protocol) protocol. The protocol is documented at http://qbeukes.blogspot.com/search/label/advanced%20digi%20discovery%20protocol
LaJolla can perform 3D alignments of RNA and protein structures. It is fast, simple to use and well tested. LaJolla is successfully published in a peer reviewed journal.
!!!!!! PROJECT MOVED TO GITHUB !!!!!!
Please check out http://raphaelbauer.github.io/lajolla/
A Simple and Efficient Framework for Infinite Resolution Simulation; provides a Java Thread-like class that executes over simulated time. Time units are user-definable, no time quanta, and neither changes to the VM nor pre-processing are required.
Everyday Software for the Researcher of Restricted Means: This project is intended to offer scientists and students with small budgets advanced versions of aqua-built desktop-editing, graphics and statistical applications for MacOSX.
SimpleWFS is a 100% Java servlet implementation of the draft OGC standard Web Feature Service (WFS) Simple. This is a Web service interface whose goal is to specify a common, minimal feature set for geospatial-temporal data access.
VideoGrok is a set of applications for relating metadata to segments of video, and then locating and analysing these, with interfaces to technologies including SMIL, RSS and RDF. Currently based on Quicktime for Java. This restriction will be removed.