Upcoming training events for bioinformatics and genomics researchers
During April and May 2022, NeSI and Genomics Aotearoa are co-hosting a range of hands-on skill-building events for Aotearoa New Zealand's bioinformatics and genomics communities.
Follow the links below for more information or to register.
Introduction to Bash scripting and job scheduler (Slurm) for High Performance Computing
12 April 2022
9:30 am – 4:30 pm
This is a follow-up workshop. After attending the introductory workshops (Bash, R or Genomic data analysis), we aim to take you to a level where you are comfortable writing small scripts and automate your data analysis workflows through writing basic bash scripts and scaling the workflow with the use of slurm job scheduler. The NeSI High Performance Computing platforms will be used for this workshops.
Note: Participants are expected to have familiarity with Bash and workflows in general.
Introduction to R (for Genomics)
13 April 2022
10:00 am - 4:00 pm
This introductory workshop will help you get started with R for genomic data analysis. Specifically, attendees can expect to learn:
- The basic features of the R language
- Getting started with tabular data
- Aggregating and analysing data
- Data visualisation
- Producing reports with R Markdown
10 May 2022
9:30 am – 4:00 pm
Genomics Aotearoa and NeSI will be running an RNA-seq workshop that will cover a Differential Expression pipeline. The workshop will cover both Pre-analysis (Experimental design) and Core-Analysis (Quality Check, Read Alignment, Differential Expression, Quantification and Functional profiling).
Note: Participants are expected to have familiarity with both bash and R.
Introduction to Snakemake
12 May 2022
10:00 am – 4:00 pm
Are you working with big data? Do you need to pass your data through various software? "Oh wait! Have I updated this output file?" If you’ve ever been in these situations, you know that it can become quite difficult to maintain consistency and accuracy. The more manual steps we execute, the more human errors that are inevitably introduced into our analysis - hampering accuracy and reproducibility.
In this hands-on workshop, you will be guided through an introduction to Snakemake, a workflow language with its basis in the popular programming language, Python. Attendees can expect to learn:
- The benefits of using Snakemake or other workflow languages,
- How to create a workflow to organize your computations, and
- How an HPC scheduler (such as Slurm) fits into your workflow
If you have any questions about these upcoming sessions or suggestions / requests for training in other areas of bioinformatics or genomics, contact email@example.com.