This was my first big programming project. I'd like to clean it up and improve the back end design when time permits. See the wiki for known issues and more information.
A computer vision program for analysis of magnetic data collected by a scanning probe microscope. Originated in summer 2007 as a collection of C compiled for Matlab (MEX) files and was eventually ported to a standalone C++ application with a GUI created in Qt.
This program takes atomic and magnetic force microscope...
Platform for parallel computation in the Amazon cloud, including machine learning ensembles written in R for computational biology and other areas of scientific research. Home to MR-Tandem, a hadoop-enabled fork of X!Tandem peptide search engine.
The objective of this project is to make available an open-source of a gridified version of the Multifactor Dimensionality Reduction (MDR) software (http://www.epistasis.org/software.html).
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Febrl (Freely Extensible Biomedical Record Linkage) does data standardisation (segmentation and cleaning) and probabilistic record linkage ("fuzzy" matching) of one or more files or data sources which do not share a unique record key or identifier.
STAMPCHA is an alternative solution to user unfriendly CAPTCHA.
STAMPCHA is a very user friendly and easy to install software for web sites.
STAMPCHA is designed to show a series of images to user and ask a question based on that.
only one image is the correct answer.Unlike other CAPTCH software its very easy for the
users to respond.Users only need to type the relevant image number in the text box.
Since the order of the images and the questions are generated randomly each...
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...
PyBact is an open source software written in Python for Bacterial Identification. The software generates simulated data matrix which accurately represents the probabilistic positive/negative results of the tested biochemical test.
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ssSVMToolbox is a Java application capable of performing supervised and semi-supervised learning tasks with Support Vector Machines. It is based on Spring (http://springframework.org/), RapidMiner (http://www.rapidminer.com) and Eclipse RCP (http://eclip
A toolkit with using Suffix Array indexing for empirical natural language processing. Providing functions such as searching the occurrences of n-grams in the corpus and suffix array language model which can use arbitrarily long history.
The Wikipedia Miner toolkit provides simplified access to Wikipedia. This open encyclopedia represents a vast, constantly evolving multilingual database of concepts and semantic relations; a promising resource for nlp and related research.
A C++ implementation of Dynamic Field Theory (DFT), Amari kind of space-time continuous fields representing activation of populations in neural cortex. Source code for the GUI is available through SVN.
ESMERALDA is a development environment for statistical
recognizers operating on sequential data (speech, handwriting,
biological sequences). It supports continuous density Hidden
Markov models, Markov chain (N-gramm) models, and Gaussian
mixture models.
“Neurology Diagnosis System” is a web-based expert system for diagnosis of neurologic disorders or the disorders of our nervous system. Health assistants in remote areas can use the system to diagnose neurologic patients in the absence of neurolo
WQuery is a domain-specific query language designed to process WordNet-like lexical databases. It may be used as a standalone application or as an API to a lexical database in Java based systems.
Project aim to provide simple easy APIs for Java developers to use interactive abilities in their Java Applications like speech recognition, handwriting recognition, use of web cam , sound record/play, decision trees , text to speech and many others.
The aim of ATRACO project is to contribute to the realization of trusted ambient ecologies. Interactive appliances, collaborative devices, and context aware artefacts, as well as models, services, software components are parts of ambient ecologies.
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.
NeurAnim is a research aid for computational neuroscience. It is used to visualise and animate neural network simulations in 3D, and to render movies of these animations for use in presentations.