Monday August 29: Introduction to Supercomputing at ASU
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Brandon Mikkelsen
This is the first in a series of training workshops being conducted to allow students and researchers aware of the high performance computing resource availability in-house. The presentation will provide a holistic overview of the cluster system hardware and software environment. A top level introduction to using an Unix/Linux based system with simple and useful commands and scripts, user environment including the Module system (used for software stack management), Compilers, SLURM, Moab and Gold for batch queuing, scheduling, and accounting will be provided. The talk will be very useful for first time users of the cluster to access and use the system effectively.


Monday September 12: Interacting with the cluster:  SSH/SFTP, SLURM batch scripts
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Darren Thifault
For users who are comfortable running programs locally, but need a hands-on example of how to connect to the HPC, how to interact remotely with the cluster, how to move files, and how to execute jobs.


Monday September 26: Useful Shell Scripting
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Jeremy Mills
In everyday coding, shell scripting is extremely powerful and useful. This workshop will go over useful shell scripting for file manipulation and analysis.


Monday October 24: Uncertainty quantification and sensitivity analysis
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Anuj Mubayi
Description TBA


Monday November 7: Designing and implementing a pipeline for reference-based genome assembly
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Tim Webster
Understanding genome-wide variation requires the 1) assembly of millions of short reads produced by high throughput sequencing technology into a single genomic sequence, and 2) accurate identification of genomic variants from this genomic sequence. The volume of data and many errors introduced during sequencing can make these tasks both bioinformatically challenging and computationally expensive.  This session will present the design and implementation of a reproducible pipeline for reference-based and quality-controlled genome assembly and variant calling.


Monday November 21: Protein analysis
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Darren Thifault
Characterizing and inferring protein dynamics is possible using bioinformatics software on the web, but large-scale analyses require installing and running this software on HPC. This session will present a series of software that are commonly used in protein analysis, I-TASSER (protein structure/function prediction), ClusPro (FFT based Docking), HADDOCK (Simulation based Docking), and give a brief overview of how these can be used on the HPC.


Monday December 5: Stochastic modeling and simulations
When: 10am-11am lecture; 11am-noon practice
Where: LSC 180
Lokam Dheeraj
Description TBA