Workshop

The chapters in this section of the site will lead you through each step of the workshop. Please work through these steps in order and, if you get stuck, please ask one of the lecturers or demonstrators for help.

  1. Assessing the quality of sequence read data
  2. Prepare your sequencing read data for assembly
  3. Assemble a genome from your sequencing data
  4. Visualise your genome assembly
  5. Annotate your assembly
  6. Visualise your annotation
  7. Map reads from your SARS-CoV-2 isolate to the SARS 2003 genome
  8. Visualise the mapped reads using JBrowse2
  9. Identify sequence variants (SNPs, Single Nucleotide Polymorphisms) between SARS-CoV-2 and SARS 2003
  10. Use what you’ve learned to identify and interpret changes in the SARS-CoV-2 virus during the COVID-19 pandemic