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QSAR is a project that aims to build a GUI that enables people to build quantitative structure activity (or property) relationship models. It will use parts of CDK (cdk.sf.net), JOELib (joelib.sf.net), R (www.r-project.org) and other projects.
Taverna is *no longer* hosted on SourceForge, but has moved to the Apache Software Foundation: https://taverna.apache.org
These pages and mailing list archives are provided for *archival purposes* for older Taverna 1.x releases.
See https://taverna.apache.org/download/ for the latest releases from Apache Taverna.
Prototype of a Java Card application for smart cards and its client application. It was developed with the support of JML (Java Modeling Language) used to formally specify the requirements for developing the HealthCard application in Java Card.
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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.
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.
The goal of this project is to formalize, extend, and make freely available code I wrote as a medical student and intern physician that tags and typesets medical data in the formats used by physicians for rapid interpretation.
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Quantitative Evalution of Blush: a program to assess myocardial reperfusion on coronary angiograms. This program calculates a value that can be used for risk classification of STEMI patients or as a surrogate endpoint in clinical trials.
ConTextKit is a Java-based implementation of Wendy Chapman's ConText algorithm for annotating the context of medical documents, specifically the negation, temporality, and experiencer.
MIVF - MedicalImaging and Visualization Factory,
is a framework for medical applications. It supplies a platform, in which image processing and 3D visualization algorithms can be employed as reusable components (functional modules or plugins).
BrainFX, a customization of GenericFX for the field for functional Magnetic Resonance Imaging (fMRI). It defines java classes, data hierarchy and data standard for the field of fMRI.
This software is related to ST-Guide project, an initiative arisen at the Institute of Computing of State University of Campinas (IC-UNICAMP) to solve the practice guideline formalization and implementation problems.
A simple application designed to help manage your family's medical prescriptions. It allows a family to track prescriptions per person and output them in PDF for dissemination. Hopefully it proves useful, and helps ease the stress of health care.
Yawi 3D (Yet Another Wand for ImageJ) implements a 3D selection tool plugin for ImageJ suitable for CT scanned images; it helps in the selection of 3D Region Of Interest (ROI) containing a tumor mass; it also provides a measure of ROI volume
Software tools for visual psychophysics research. The focus of these tools is amblyopia research, but they can be used in some related visual neuroscience research tasks.
mzSquash is a compression tool for mzML files, an XML-based standard developed by HUPO PSI (http://www.psidev.info) for spectrometer output. All development has ceased. The tool may be useful educationally, but is not a recommended utility.
JOELib/JOELib2 is a cheminformatics library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available.
Java GUI to analyze one (or more, in batch mode) datasets with several feature selection methods at the same time and also performing an "ensemble" analysis. It can be easily extended to include any feature selection algorithm.