Genomics Pipeline Management System

With the development of next-generation sequencing (NGS,) more institutions are looking to leverage genomic sequencing for both academic research purposes as well as clinical cancer diagnostic assistance. In clinical applications, this can take the form of pipelines that translate some or all of the process by which raw base call images are used to generate annotated variant caller files for bioinformaticists to provide diagnostic to the medical community. For this work, we describe the control framework used to manage this workflow for our clinical operations.

GENI Monitoring System

The Global Environment for Network Innovations (GENI) is a virtual laboratory providing resources for users to research distributed systems and networking as well as provide distributed computing resources for use in education. The University of Kentucky has been involved in many facets of the GENI project, one of which is the GENIMonitoring system I’ve worked on. The goal of the project is to collect information about the overall GENI infrastructure and monitor it for overall system health.