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This is a Java-based project for complex event extraction from text and co-reference resolution. Currently the code can read BioNLP shared task format (http://2011.bionlp-st.org/) and i2b2 Natural Language Processing for Clinical Data shared task format (https://www.i2b2.org/NLP/DataSets/Main.php). Event extraction includes finding events and the parameters for an event in a text.
The method is based on SVM but other ML algorithms can be adopted. The method details are explained in the...
Web application to make user-friendly requests on large XML database.
Tools to XML-ize large bodies of semi-formal texts (like floras).
Computer-assisted specimen identification.
Uses natural language processing, 2D/3D images analysis and generation.
Contextor is a light-weight simple-to-use Java based library to help developers and researchers working with the general concept of a resource; as examples, resources can be text resources, web resources, images and videos.
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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The purpose of this project is to develop ontology-based tools for the study of animal behavior (ethology). The goal is not to produce a general ontology or editor, but comparative methods
and (behavior) data entry tools (ethontos and owlwatcher).
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.
GAME stays for Generic Architecture based on Multiple Experts.
Its main purpose is to make easy prototyping, test and release of prediction systems.
Released by IASC group, university of Cagliari
Moara is a biological text mining tool and consists of a Java library and some auxiliary MySQL databases for gene/protein training and extraction of mentions and its further normalization and disambiguation.
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Este projeto objetiva a criação de um Toolbox para utilização de algoritmos de Computação Bioinspirada. O Toobox oferece uma vasta coleção de algoritmos de ferramentas para o projeto de Algoritmos Genéticos e Redes Neurais.
HealthAgents is an open source web-based distributed decision support system (DSS)
which provides hospitals and organisations with a reliable tool to aid in the diagnosis of brain tumours and their prognosis aiming to avoid invasive surgical
procedures
OpenDMAP (Open Source Direct Memory Access Parser) is a natural language processing (text mining) application: a semantic parser for information extraction.
CILib is a framework for developing Computational Intelligence software in swarm intelligence, evolutionary computing, neural networks, artificial immune systems, fuzzy logic and robotics.
Jazoo. The Zoo of virtual evolving creatures. Mostly focused on evolving communication between intelligent agents. It's in VERY early stage. Everyone's invited to join, participate, suggest, discuss etc.
Java API for implementing any kind of Genetic Algorithm and Genetic Programming applications quickly and easily. Contains a wide range of ready-to-use GA and GP algorithms and operators to be plugged-in or extended. Includes Tutorials and Examples.
Protege is a free, open-source platform that provides a suite of tools to construct domain models and knowledge-based applications with frame-based and Semantic Web ontologies.
MutationFinder is a biomedical natural language processing (NLP) system for extracting mentions of point mutations from free text. MutationFinder achieves high performance (99% precision, 81% recall on blind test data) as an information extraction system
TACS (Trust Ant Colony System) is a Trust model for P2P, Ad-hoc and Wireless Sensor networks (also valid for multi-agent systems) based on the bio-inspired algorithm ACS (Ant Colony System).
JGenAlg is a java toolbox for working with metaheuristic procedures (Genetic Algorithms, Island model, Particle Swarm, Ant Swarm). JGenAlg have a GUI, a Client/Server architecture, work with threads and can be use under distributed enviroments.
The aim of GUINNEA (Graphical User Interfaced Neural Network Architecture) is to develop a comfortable and high-featured neural net simulator which is highly configurable and flexible. It will support many neural nets and visualization features for those
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.