Optimizing high performance computing workflow for protein functional annotation

Techniques for Optimizing Applications: High Performance Computing

Performance-Aware Workflow Management for Grid Computing

Grid middleware development has advanced rapidly over the past few years to support componentbased programming models and service-oriented architectures. This is most evident with the forthcoming release of the Globus toolkit (GT4), which represents a convergence of concepts (and standards) from both the grid and web-services communities. Grid applications are increasingly modular, composed of ...

FLAW: FaiLure-Aware Workflow Scheduling in High Performance Computing Systems

The goal of workflow application scheduling is to achieve minimal makespan for each workflow. Scheduling workflow applications in high performance computing environments, e.g., clusters, is an NP-Complete problem, and becomes more complicated when potential resource failures are considered. While more research on failure prediction has been witnessed in recent years to improve system availabili...

Parallel-META 2.0: Enhanced Metagenomic Data Analysis with Functional Annotation, High Performance Computing and Advanced Visualization

The metagenomic method directly sequences and analyses genome information from microbial communities. The main computational tasks for metagenomic analyses include taxonomical and functional structure analysis for all genomes in a microbial community (also referred to as a metagenomic sample). With the advancement of Next Generation Sequencing (NGS) techniques, the number of metagenomic samples...

Optimizing Semantic Data Transformation Using High Performance Computing Techniques

The growth of the Life Science Semantic Web is illustrated by the increasing number of resources available in the Linked Open Data Cloud. Our SWIT tool supports the generation of semantic repositories, and it has been successfully applied in the field of orthology resources, helping to achieve objectives of the Quest for Orthologs consortium. However, our experience with SWIT reveals that the t...