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E-Cell's sourcecode repository has moved to GitHub!
https://github.com/ecell
The development of E-Cell now continues on GitHub.
The Subversion repository was abandoned.
"""
E-Cell System is an object-oriented software suite for modeling, simulation, and analysis of large scale complex systems such as biological cells. It allows many components driven by multiple algorithms with different timescales to coexist in a model.
MOLGENIS can be used to generate databases for life science experiments (micrroarray, mass spectrometry, genomics) having a web user interface, csv exchange format, and programmatic interfaces (web services, rest, and r-project). See NatRevGen 8.
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.
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BCIOP is a free, open and portable protocol standard for data exchnage with Brain Computer Interface devices. Compact deisgn allows its code to be easily implemented both on target microcontroller and the host computer.
WIndows Dicom Open Viewer, is a simple viewer for DICOM medical images, to be used expecially on removable devices (such as Patient CDs). Partially based on ezDICOM sources.
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Currently no one of the developers has enough time to go on with the code.
Please, feel free to contact the administrators in order to participate in the development.
With this Python module (based on C++ code) it is possible to create a Brain Comp. Interface (BCI) and herewith to get EEG data online and evaluate the data while receiving it. - Up to now, this tool relies on the Brain Vision Rec. as EEG software -
EXPR is a software package for the recording and analysis of animal behaviour. Recording is done by pressing particular keyboard keys on the computer. The software then saves the sequence and timing of behaviours. Note that the DOS (1995: https://sourceforge.net/projects/expr/files/expr/fb-port-expr-00-1995/EXPR-binary-DOS-0.0.1995.tar.gz/download) version is currently the only fully functional and is recommended for use. On modern computers, DOS software can run in DOSBOX (https://www.dosbox.com/).
A simple dual n-back trainer, written in C++, and using SDL (and only SDL). Designed to mimic the simple training scheme outlined in Jaeggi's paper on developing working memory, it features a professional voice artist for the letter sounds.
The MIX program is meta-analysis software for Excel 2000 or 2003 that works like a standalone application. This version of MIX, however, is no longer maintained and replaced my MIX 2.0. MIX 2.0 can be found at http://www.meta-analysis-made-easy.com.
A topological data structure to handle 2D simplicial meshes (using the Morse operators published by authors). This data structure is implemented using C++ and it is based on the classical Half-Edge. This code started in 2002 and it has been used in many
The project is based on the experience carried out in the University of Padova where at the end of 1997 we have choose to create one Computer science Unit inside of Department of Medical and Sciences and Special Therapies to develope Radiological OSS.
Research code for continuous 3D medial modeling targeted towards anatomical objects. Includes an OpenGL viewer and individual and population-based model fitting tools.
jCpSim (Java CardioPulmonary Simulations) is a set of Java
packages for simulation of human physiology (respiration,
circulation, ...) and of medical therapy (ventilation, ...).
Creation of user interfaces and therapy optimization is supported.
The virtual lab is a NASA-funded project to provide simulated instrumentation. ITG has developed a Virtual Microscope (Virtual SEM and LM) for viewing high-resolution, multi-dimensional image datasets. More info and data: http://virtual.itg.uiuc.edu
This software system serves as both a DICOM image viewer as well as a diagramming tool for collaborating notes on the given image sets. This my Computer Science graduate thesis project at Loyola Marymount University.
OpenMedic is a set of open source software and hardware building blocks written in C# for building computer-based medical instrumentation and controls using the .NET framework.
Manuelito is a Java tool for decrypting posttranslational modification (PTM) patterns of proteins based on MALDI mass spectrometry spectra. It was built for analysing the 'histone code' but it can be applied to any other highly modified protein.
Sight provides a friendly interface to create and connect agents for bioinformatics. The workflow supports multiple responses to a single request, structure transforms, filters and request history access.Can talk with ordinary http servers (get and post)
FM100 is a computer simulation of the Farnsworth-Munsel 100 hue colour (color) vision test. The results of the test can be used to assess the user's colour vision.
MammCAD is a tool suite for performing rapid computer aided diagnosis of radiographic mammogram images. It is intended to be used for rapid development and deployment of low-cost CAD machines.
Medical decision making algorithm tool. Visual design tool generates Tcl/Tk code. Non-programmers can design interactive algorithms. Generates notes for inclusion in medical record. Runs freestanding or in Tcl Plugin.