Open Access. Powered by Scholars. Published by Universities.®
Physical Sciences and Mathematics Commons™
Open Access. Powered by Scholars. Published by Universities.®
- Keyword
Articles 1 - 2 of 2
Full-Text Articles in Physical Sciences and Mathematics
A Dynamic Run-Profile Energy-Aware Approach For Scheduling Computationally Intensive Bioinformatics Applications, Sachin Pawaskar, Hesham Ali
A Dynamic Run-Profile Energy-Aware Approach For Scheduling Computationally Intensive Bioinformatics Applications, Sachin Pawaskar, Hesham Ali
Computer Science Faculty Proceedings & Presentations
High Performance Computing (HPC) resources are housed in large datacenters, which consume exorbitant amounts of energy and are quickly demanding attention from businesses as they result in high operating costs. On the other hand HPC environments have been very useful to researchers in many emerging areas in life sciences such as Bioinformatics and Medical Informatics. In an earlier work, we introduced a dynamic model for energy aware scheduling (EAS) in a HPC environment; the model is domain agnostic and incorporates both the deadline parameter as well as energy parameters for computationally intensive applications. Our proposed EAS model incorporates 2-phases. In …
Graph Mining For Next Generation Sequencing: Leveraging The Assembly Graph For Biological Insights, Julia Warnke-Sommer, Hesham Ali
Graph Mining For Next Generation Sequencing: Leveraging The Assembly Graph For Biological Insights, Julia Warnke-Sommer, Hesham Ali
Computer Science Faculty Publications
Background: The assembly of Next Generation Sequencing (NGS) reads remains a challenging task. This is especially true for the assembly of metagenomics data that originate from environmental samples potentially containing hundreds to thousands of unique species. The principle objective of current assembly tools is to assemble NGS reads into contiguous stretches of sequence called contigs while maximizing for both accuracy and contig length. The end goal of this process is to produce longer contigs with the major focus being on assembly only. Sequence read assembly is an aggregative process, during which read overlap relationship information is lost as reads are …