Tutorials List

Displaying 1 - 30 of 43
Tutorial Name Summary Next Date Offeredsort ascending
Quality Control of Illumina Data with Galaxy

This hands-on tutorial will help a new user understand how to use the the Galaxy platform to analyze NGS data

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Intel Xeon Phi Coprocessor Developer Training

This tutorial covers Intel Xeon Phi architecture, programming models, parallel frameworks, and optimization methods

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Abaqus

This tutorial covers an overview of the new enhancements to Abacus as well as a brief introduction to Isight, Tosca, and fe-safe.

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OpenMP

This tutorial provides an introduction on how to write a parallel program using OpenMP, and will help researchers write better and more portable parallel codes for shared memory Linux nodes

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Analyze ChIP-Seq Data at the Command Line

This tutorial focuses on command line tools in the Galaxy enviornment to analyze ChiP-Seq data, automate mapping and peak calling, and edit and run scripts.  

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PacBio Sequencing - Lecture

This lecture will cover the special capabilities and use cases of PacBio sequencing as well as the basics of data analysis.

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Analysis of PacBio Sequencing Data Using SMRT Portal

This hands-on tutorial will cover installation and use of the SMRT portal at MSI to analyze PacBio sequencing data.

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Basics of RNA-Seq Data Analysis - Lecture

This lecture will cover the basics of RNA-Seq experimental design and data quality assessment, followed by an overview of data analysis for the detection of differentally expressed genes.

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Quality Control of Illumina Data at the Command Line

This hands-on tutorial will introduce new bioinformaticitions to the skills needed to start to build more complex analysis pipelines. 

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Digital Gene Expression (DGE) Analysis Using Galaxy, Human Data

This is a practical, hands-on tutorial designed to give participants experience with RNA-Seq data analysis using Tophat, Cufflinks, and CummRbund in Galaxy.

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Analyzing ChIP-Seq Data using Galaxy

This practical, hands-on tutorial is designed to give participants experience with ChIP-Seq data analysis using the Galaxy platform. 

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Interacting with dbGaP data on Stratus

This tutorial introduces Stratus to users who wish to process dbGaP data at MSI

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Proteomics Mass Spectrometry Data Analysis (Lecture)

(Lecture only) This tutorial is an introduction to common techniques for the analysis and quantitation of proteomics mass spectrometry ("mass spec") data.

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Getting started with XSEDE resources

This hands-on tutorial will introduce MSI researchers to multiple XSEDE resources.

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Introduction to Deep Learning with Caffe and Tensorflow

In this tutorial, MSI and Nvidia instructors will walk through an interactive exercise running programs such as Caffe and Tensorflow.

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Ingenuity Pathway Analysis (IPA) New User Training

This tutorial is an introductory lecture for new IPA users

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Proteomics Mass Spectrometry Data Analysis (Workshop)

(Hands on workshop) This tutorial is an introduction to common techniques for the analysis and quantitation of proteomics mass spectrometry ("mass spec") data.

 

 

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MPGI Workshop: Intro to MSI (Module 1)

MPGI and MSI led tutorial on MSI HPC systems and labs, as well as MSI storage options and policies.

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MPGI Workshop: Intro to Genomics Terminology and Analysis (Module 2)

MPGI and MSI led lecutre on descriptions of Illumina, Nanopore, and Pacific Biosciences technologies

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MPGI Workshop: Intro to PBS Scripts and Job Queues (Module 3)

MPGI and MSI led tutorial on how to write a PBS script and how to submit it to a queue

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MPGI Workshop: Job Parallelization with Task Arrays and GNU Parallel (Module 4)

MPGI and MSI led tutorial on how to use task arrays or GNU parallel to make use of the parallel computing environment at MSI.

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Introduction to Performance Tools

This tutorial provides an introduction on how to use performance tools to optimize the performance of a program.

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Introduction to COMSOL Multiphysics

An interactive web workshop on the use of the COMSOL Multiphysics® software.

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Review of Sequencing technology and RNA-Seq analysis

Description of next generation sequencing and its application in biology researches

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Hands-on tutorial on RNA-Seq analysis using CHURP

This Hands-on tutorial will cover a standard RNA-Seq analysis using RIS pipeline CHURP 

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From differential gene expression to enriched pathway analysis

This tutorial will introduce R for data analysis

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Compiling and Debugging

This tutorial will help users learn the basics of compiling and debugging their code on MSI systems

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Singularity & Containers

This course will introduce users to containers and provide hands-on experience running both interactively and within batch scheduled jobs.

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UMN Duluth: Introduction to MSI

Description of MSI services including our access to our experts, HPC systems and storage options. Policies regarding computing resource usage and storage usage will be covered.

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UMN Duluth: Introduction to PBS scripts and Job Queues

Hands on tutorial on how to write a PBS script and how to submit it to a queue. Queue limits and SU accounting will also be covered.

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