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BiVeS - Biochemical Model Versioning System BiVeS is a tool based on the XMLDiff algorithm. You can think of it as a kind of SVN for models with biological or chemical background encoded in XML.
CNV Workshop is a web-enabled platform for analyzing genome variation such as copy number variation (CNV). Learn about CNV Workshop in our associated BMC Bioinformatics manuscript: http://www.biomedcentral.com/1471-2105/11/74
superseded by SgpDec http://sgpdec.sf.net Java implementation of the holonomy algorithm for the algebraic hierarchical decomposition of finite state automata.
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Optimization tool that mimics the darwinian reproduction, selection, mutation process. It has 2 components: the optimization algorithm and an interpretar to define function to optimize and constraints. It is all written in java (netbeans).
BorderFlow implements a general-purpose graph clustering algorithm. It maximizes the inner to outer flow ratio from the border of each cluster to the rest of the graph.
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Ex-Crawler is divided into 3 subprojects (Crawler Daemon, distributed gui Client, (web) search engine) which together provide a flexible and powerful search engine supporting distributed computing. More informations: http://ex-crawler.sourceforge.net
Simple UI to test the effectiveness of a heuristic algorithm against the brute force method for path finding among an arbitrary number of arbitrarily placed points on a grid. This is an educational project, don't expect new and better methods.
ShredBitz is a free and simple file shredder tool that can wipe selected files from any hard disk drive. ShredBitz is written in the java programming language and uses a custom written algorithm for shredding.
ShredBitz is a very powerful tool.
LEA is a lightweight eyetracking algorithm library (hence the name) written in and for Java. LEA is able to track eye movements with an ordinary webcam and returns relative movements (up, down, ...). It is also able to compensate for slight head motions.
CEGA is a highly extendable layout plugin for Cytoscape based on an Evolutionary Algorithm. In contrast to other layout algorithms, CEGA lets users decide which features are important for the visualization of their graphs.
aRSync is "Another RSync" and provides a pure java implementation of the rsync algorithm. This implementation is intended to be ready to use for file transfer, to be easy to extend for further use cases and - most important - to become productive.
D-finder is a bioinformatic search algorithm for the identification of D-sites in JNK interacting proteins. The algorithm is a combination of pattern matching and a hidden markov model (HMM) based on a training set of known JNK D-sites.
Optex Analyzer is a software to analyze and compare algorithms to solve approximately optimization problems. It has a GUI that allows select a set of input files containing raw algorithm results. The analysis is shown with tables and charts.
Beagle is Java open source framework for running and managing nondeterministic algorithms such as genetic algorithms for solving complex problems. Beagle is fully modular and maintains whole history of algorithm progress for further analysis.
This program aims at providing a java solution to hide secret information(such as secret file) to JPEG images. Hiding algorithm contains Jsteg and F5. The main(probably the toughest) stuff is encoding and decoding JFIF files.
Pure Java implementation of an interactive 3d graph rendering engine and editor using a spring embedder algorithm. Nice looking sterile real time 3d environment. Feel free to extend our project and build something awesome, just let us know please :D
This application is a tree algorithms visualizator. The user can create his own tree of a certain type (among binary, binary search, and red black), his algorithm and then can observe the execution in real time of his algorithm on his tree.