Data Intensive Computing

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Middleware for Data Intensive Computing (MeDICi)
An evolving middleware platform for building complex, high performance analytical applications. These applications typically comprise a pipeline of software components, each of which perform some analysis on incoming data and pass on the results to the next step in the pipeline.
ScalaBLAST
A parallel implementation of the original NCBI sequence alignment algorithm (BLAST). ScalaBLAST can be used to rapidly identify sequences which are similar to a set of protein sequences supplied by a user. For the ScalaBLAST software, contact Chris Oehmen.
Bioinformatics Resource Manager (BRM)
A software program that provides robust middleware architecture to link scientific applications and heterogeneous data sources. PNNL bioinformaticists are using this framework to automate multidisciplinary data mining processes used for high-throughput molecular profiling.
SVM Technique for Evaluating Proteotypic Peptides (STEPP)
Contains an implementation of a trained SVM (Support Vector Machine) that can compute a score representing how "proteotypic" a peptide is by LC-MS.
Proteomics Peptide Data Exploration (Pquad)
Allows a user to visually integrate genomic and proteomic data at the prokaryotic scale, display biological categorical information and view differential expression experiments.