The goal of this workshop is to teach the fundamental computational skills necessary for many short read sequencing analysis. In the first five days of this course participants will learn basic Unix/Linux, how to use large compute servers, read quality control, and read mapping. In the last three days we will cover the basic fundamentals of commonly used genomic short read sequencing approaches (DNase-seq, GRO/PRO-seq, RNA-seq, ChIP-seq, and ATAC-seq). Our goal is to provide the basic skills necessary for participants to be enabled to learn how to analyze their own data after the course (though some self-study after the course will be necessary).
The format of this course will be a reverse classroom. Attendees will be asked to watch video lectures outside of class. During classroom time, attendees will be working through example analysis. In addition, each day we will provide attendees with homework activities that they can optionally complete on their own time to further improve their computational skills.