This practical, hands-on tutorial is designed to give participants experience with ChIP-Seq data analysis using the Galaxy platform. The analysis in this tutorial is typical of experiments using ChIP-Seq data to identify transcription factor binding sites in eukaryotic, high quality genomes.
Intel will be providing training, to help software developers optimize their codes for the Xeon Phi coprocessor. This training is being held at the Minnesota Supercomputing Institute at the University of Minnesota. Current University students, staff, and faculty are invited.
This tutorial is paired with Analyzing ChIP-Seq Data using Galaxy and will take the user though the same steps but, using the command line versions of the tools used in the Galaxy environment. This tutorial will:
1. Provide a brief introduction to MSI systems.
This tutorial will help users learn the basics of compiling and debugging their code on MSI systems. Particular attention will be paid to code written in Fortran, C, and C++. Basic methods for debugging will be outlined, with users being able to explore different debugging tools.
This tutorial will help users learn the basics of parallel computation methods, including strategies for collecting calculations together for parallel execution. A brief description of parallel programming using MPI message passing will be given.
The RNA-Seq analysis tutorials includes two lectures and two hands-on guided tutorials. The lecture materials cover the basics of differential expression analysis and touches on other RNA-seq topics such as transcriptome assembly.