This online workshop is delivered by Genomics Aotearoa and NeSI, and will be taught over two mornings from 9:00am-1:00pm NZT on Tuesday 24th of June and Wednesday 25th of June, 2025. It is for New Zealand researchers interested in RNA-seq data analysis.

The focus of this workshop is to analyse RNA-seq data with the aim to identify differentially expressed genes.

During Day 1 we will cover quality control and read cleaning, alignment and quantification methods, and carry out an exploratory analysis of an example data set.

During Day 2 we will work through two methods which take unique statistical approaches to identifying differentially expressed genes. We will then look at over-representation analysis, a popular method to derive biological meaning from a list of differentially expressed genes.

Who this workshop is for

This is a beginner-friendly workshop which assumes you are familiar with the basics of R ( e.g., you can copy basic functions like head, tail, or colSums, you are aware of how R stores files as Objects) and bash (e.g., can change directory with cd command, make a new folder with mkdir command, view contents using less command). If you would like a refresher on R you can find one here. If you would like a refresher on bash you can find one here.

Setup

This is a fully online, hands-on workshop. This workshop material will be run on the NeSI High Performance Computing (HPC) platforms - there is no need to install any software for this workshop. Instructions on how to access the NeSI HPC service will be sent out with the confirmation letter to registrants.

Participants must have their own laptops and plan to participate actively. You will require a working web browser.

If you have any questions about these workshops, including whether they are suitable for you, please contact tyler.mcinnes@otago.ac.nz.

RNA-seq Data Analysis