Description

This tutorial covers the process of handling bulk RNAseq data with command line tools.

Attendees will learn the structure of a “standard” bulk RNAseq analysis workflow and the names of commonly used tools to process the data. We will cover the setup and use of a command line MSI-developed analytical workflow to process a real RNAseq dataset. Quality control metrics and basic interpretation of experiment summaries are covered. A short command line introduction is provided. Differential gene expression analysis is not covered in this tutorial.

NOTE: Registrants from outside of the University of Minnesota will be able to attend and watch the tutorial, but will not be able to interactively complete tutorial exercises.

Prerequisites: None, but Linux command line experience is beneficial

This tutorial will cover:

• Common commands for the Linux command line
• Basic organization of files and directories on Linux systems
• Workflow for bulk RNAseq data processing
• Usage of an MSI-developed tool for bulk RNAseq analysis
• Common quality control metrics for bulk RNAseq experiments

To be successful, you should have:

• An active MSI account
• Basic familiarity with the Linux command line
• Knowledge of how to submit compute jobs on MSI systems
• Basic understanding of genomics technologies
• A laptop or computer to follow along with exercises (in-person attendees should bring their laptop with them)