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JFASTA is a lightweight framework for handling FASTA files. It supports reading, writing and parsing of single- or multi-FASTA files. Files may be read/ written at once, or stream-based (memory efficient). It's stable, very intuitive and good integrated with Java 1.5 SDK and later.
This library aims to provide support for D-dimensional images in Java and to enable high-level implementation of algorithms in dimensionally-invariant manner. Major features: the dimensionality and the access to primitive data types are abstracted.
IDL specified API for manipulating and processing CellML 1.0 and 1.1. Includes C++ implementation. Accessible from a C++ program, or from any language for which a CORBA language mapping is available Also, a Java wrapper of the API is available.
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Based on HL7 v.2.3.1 Orders & Results Reference Information Model (RIM)s, The project is NOT a CPOE per-se. Instead, the project provides "applications" that allow EHR's to perform Outpatient Orders and Results via HIE, and collect these into their EHRs to feed the EHR "CPOE module / section" (ex. with prescribed drugs, ordered labs and results, ....)
The first module in the project was the "ePrescribing application"; certified by RxHub and SureScripts back in 2007. New...
An api for domain level interaction with SNOMED CT and an implementation based on a storage engine using a native SNOMED distribution stored in neo4j as a backend.
ANT is a lightweight implementation in C of a kind of artificial neural net called Multilayer Perceptron, which uses the backpropagation algorithm as learning method. The package includes an introductory example to start using artificial neural nets.
DrPangloss is a python implementation of a three operator genetic algorithm, complete with a java swing GUI for running the GA and visualising performance, generation by generation
JAligner is an open source Javaimplementation of the dynamic programming algorithm Smith-Waterman with Gotoh's improvement for biological local pairwise sequence alignment with the affine gap penalty model.
Anthill is a framework to support the design, implementation and evaluation of P2P applications based on ideas such as multi-agent and evolutionary programming borrowed from the complex adaptive systems area.
The ultimate goal of this project is to create a Java based DNA viewer that is both flexible and extendable. The initial phase will involve the design and implementation of a framework that can be used either with this project or other similar projects.
A straight-forward Javaimplementation of a mixture model with pluggable mixture functions, e.g. a mixture of Gaussian functions. The number and dimensionality of the mixture functions is not limited. All critical calculations are performed in log-space.