This lesson is still being designed and assembled (Pre-Alpha version)



All pre-requisites are taken care of if you are using this lesson at the Otago Bioinformatics Spring School 2021.


This RNA-seq workshop aims to get you started with your own RNA-seq analysis and assumes you are already familiar with the basics of bash and R.

This workshop is sponsored by Genomics Aotearoa and the New Zealand eScience Infrastructure (NeSI).


Setup Download files required for the lesson
00:00 1. Workshop Overview What is RNA-seq?
What data will we be using in this workshop?
00:40 2. Quality control of the sequencing data. What tools do we use to assess the data quality data in RNA-seq experiments?
01:10 3. Trimming and Filtering reads What steps are required for basic data cleaning in RNA-seq studies?
01:40 4. Map and count reads How do we turn fastq data into read counts?
02:25 5. Differential Expression How can we identify genes which exhibit changes in expresion between experimental conditions?
03:40 6. Overrepresentation analysis (Gene Ontology) How can we identify changes in biological mechanisms (e.g., pathways) in gene expression studies?
04:40 Finish

The actual schedule may vary slightly depending on the topics and exercises chosen by the instructor.