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GEM is a computational method for identification of transcription factor modulators, using expression datasets. The method tests if the correlation between factor and target gene depends on the expression of the modulator.
The Edinburgh Pathway Editor (EPE) is a tool and framework that allows the drawing and manipulation of Biological Networks, such as signalling or matabolic pathways. The editor supports several notations including SBGN and Cytoscape notations.
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Decimal floating point library in Java. Provides decimal floating point math for Java via a clean, easy to understand implementation. Much easier to use than Big Decimal, nearly IEEE-854 compliant. Compatible with J2ME, so it can be used on PDAs/phon
superseded by SgpDec http://sgpdec.sf.net Java implementation of the holonomy algorithm for the algebraic hierarchical decomposition of finite state automata.
EMBOSS is a dynamic and comprehensive Open Source package for bioinformatics (DNA and protein sequence analysis, protein structure, phylogenetics, etc.). EMBOSS is written in C, also compatible with C++, and has a separate Java interface (Jemboss)
Tsunami is an open-source high performance computing language. With it you can write streaming data-parallel algorithms that utilize GPGPUs for orders-of-magnitude speed-up with the ease of writing sequential algorithms.
Dicodess is a software framework for developing distributed cooperative decision support systems. It helps build DSS for mission-critical decision-making situations happening in dynamic, rapidly changing and often unpredictable distributed environments.
RESOLVE is an integrated specification and programming language designed to develop component-based software that is fully specified and verified to be correct. It is one of the longest running software engineering projects in the USA.
Infutur is a research project on the application of Future Internet technologies to the tourism sector. Through this project, a number of software components will be released.
A Java application used in whole genome analysis to display SNPs in a genomic context. Supplementary data is downloaded from various public data sources on the fly and saved locally in a cache. Custom data can be added as supplementary tracks.
Proxy for debugging web apps. All info from request and response with decompression. Allows to set latency, bandwidth or filtering of specific pages. To evaluate high latency,AJAX debugging,page load time,time schema or to verify submitted data.
Semantic Spaces offers a virtualization layer on top of RDF repositories and SPARQL endpoints. Its entry point is an RDF2Go model that wraps the underlying data providers in a unifying and spaces-based framework for large-scale data management.
The D2RQ API provides access to relational database content from within the Jena and Sesame RDF frameworks. D2R Server is a Semantic Web server and SPARQL endpoint based on D2RQ. Both use a declarative language for mapping database schemata to RDF.
Simple UI to test the effectiveness of a heuristic algorithm against the brute force method for path finding among an arbitrary number of arbitrarily placed points on a grid. This is an educational project, don't expect new and better methods.
Ohua is an implementation of the stateful functional programming model along with a dataflow execution engine as a runtime system. Ohua mixes object-oriented (imperative) and functional programming to provide implicit parallelism.
The project moved. Please find the most up-to-date version at:
https://bitbucket.org/sertel/ohua
ClimateTrends is an information and analysis tool on global climate change developed by the World Resources Institute. ClimateTrends provides a comprehensive and comparable database of greenhouse gas emissions data.
The purpose of this project is to implement a generic Search Engine for object oriented domain models.
This project is based on published work by the author and it's intended to become the authors grade thesis project.
wsmo4j is an API and a Reference Implementation for building Semantic Web Services applications compliant with the Web Service Modeling Ontology (http://www.wsmo.org/)