Week 4

Agenda for (02/08/2023)

• Introduction to High-Performance Computing (HPC) resources at GW

• Lab exercises

  • learn how to create virtual environments

  • connecting to and working remotely on Cerberus

  • install Miniconda and Bioconda on Cerberus

  • learn to write sbatch scripts on Cerberus

  • microbial genome assembly using SPAdes (on Cerberus)

  • obtain assembly metrics using Quast

  • download/upload files to/from Cerberus using rsync

  • visualization of assemblies using Bandage

  • download metagenomic data on Cerberus for next week

  • Run a metagenome assembly if there is time