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Facilitating Fusarium Oxysporum Computational Research

Project Information

slurm, containers, debugging, data handling, data wrangling, desktops,
Project Status: In Progress
Submitted By: John Griffin
Project Email: jgriffin@umass.edu
Project Institution: UMass Amherst / MGHPCC
Anchor Institution: University of Massachusetts

Mentors: John Griffin
Students: Brandon Cross

Project Description

Li-Jun Ma at UMass Amherst uses high-throughput sequencing that relies on HPC. We have been adapting her PacBIO SMRTAnalysis pipelines to run in a cluster environment. We are working extensively with PacBIO vendor support, and with the Ask.CI and XSEDE Campus Champions communities to tackle this project. Ask.CI has proved very useful and allowed us to progress farther with one of the pieces of software for Li-jun.