ECSS Symposium October 2015

SoyKB pipeline on XSEDE - an overview

Presenter(s): Mats Rynge (USC/ISI)

Principal Investigator(s): Dong Xu (University of Missouri, Columbia)

Presentation Slides

The Soybean Knowledge Base project (http://soykb.org/) is conducting resequencing of more than 1000+ soybean germplasm lines using Illumina paired end sequencing for multiple projects, selected for major traits including oil, protein, soybean cyst nematode resistance (SCN), abiotic stress resistance (drought, heat and salt) and root system architecture. In this talk we discuss how SoyKB uses XSEDE for the sequencing pipeline and how ECSS helped create the Pegasus workflow for the pipeline. We will also discuss our current effort of transitioning from TACC Stampede to TACC Wrangler.