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pygr is a bioinformatics toolkit for sequence analysis and comparative genomics. pygr is highly scalable (e.g. one can easily query multi-genome alignments) and easy to use. Please see our new project page and wiki at http://code.google.com/p/pygr.
@Note2 is now available in www.anote-project.org
@Note is a Biomedical Text Mining workbench that integrates current Biomedical Text Mining (BioTM) methods and provides biologists with intuitive tools capable of supporting their bibliographic searches and further literature curation.
A feature rich Open Source Core Electronic Medical Record for small medical providers developed with Plone/ Python/ Zope. Core EMR functionalities: Patient History, Past Visits, Rx, Health Maint., Allergies, Labs, Vitals, Notes, and Procedures.
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Re-searcher is the system for recurrent psiblast searches. It enables timely detection of new proteins on the protein sequence databases. Searches can be done on a local server or at NCBI. It has a user-friendly web interface.
The Open Optimization for Java provides a framework and the implementation of commonly-used algorithms found in Graph Theory and Network Optimization, e.g. shortest path and postman problem.
RGDicom is a Java viewer of medical images (DICOM - Digital Imaging and Communications in Medicine). It allows direct connection with the medical devices, therefore it implements DICOM 3.0 protocol and includes a lot util features, like edit the images.
The project contain c# classes library and Java class library that implement the GeoRSS specification 1.2,by Joe hu at MapWindow software lab,Idaho State University
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The goal of the GeneText project is the development of a software package that will enable users to dynamically generate an information summary page from multiple sources given a search term. Fields of interest are biology, genetics and bioinformatics.
The Wilderness Mapping Project is an interactive Java based web application for providing detailed route information for travelers through the Boundary Waters Canoe Area Wilderness (BWCAW) in northern Minnesota.
NutrientDB provides a PHP API for searching and retrieving nutritional information for any food from the USDA Nutrient Database. Developers need only write a front end GUI that calls the NutrientDB PHP API in order to interact with the USDA database.
Xebra is an open source, cross-platform, thin client and server for web-based distribution and clinical review of medical imaging results. Xebra is based on the latest open industry standards including JPEG2000, WADO and IHE XDS-I.
EMSIM -- EnergyMarketSIMulator -- Agent-based EEX Replay. EMSIM is a META-Simulator that can show you what would have happened at the EEX spot market if ...
This is a Python package designed to process Penn Treebank Release II-style combined trees (.mrg files) into useful objects for tree traversal, feature extraction, and statistical analysis. For more information, go to http://mrgutils.sourceforge.net
The Model Interaction Environment for Neuroscience provides tools for development, searching, editing, execution, and visualization of biophysical models, abstract mathematical models, and experimental protocols used in neuroscience research.
RAP - RDF API for PHP is a software package for parsing, manipulating and serializing RDF models. It is based on the Stanford RDF API by Sergey Melnik.
ORFer reads the NCBI GenBank XML sequence format and extracts open reading frames for proteins. Sequences can be requested by GI or accession number. ORFprimer is an extended software package for high throughput PCR primer design for biological sequences
An easy to extend, highly graphical, easy to use 2D robot simulator specialized for path planning algorithms. Can be used in testing various robotic algorithms, and already used for comparison of path planning algorithms like RRT, RRTConnect, PRM, RboT..
Referent Tracking (RT) is a novel approach to store data in electronic (health) records by referring to real world entities by means of a unique ID. The RT System is a back-end that uses RDF as a representation, but adds to it a referential semantics.
KNeTS (Knowledge Elicitation Tools) is a survey tool to create multi-agent models based on local knowledge using pattern analysis to identify rules that are iteratively validated with the informant. The final output is a knowledge-based multi-agent model
XML is one way to transfer a Printed Circuit Board (PCB) data base
between Software Applications. This projects starts with an export
from PCB123 and creates a Kicad brd file.