index.qmd

---
title: "Genomics Aotearoa and REANNZ: Bioinformatics Training Programme"
image: assets/logos/GA-REANNZ-wide-colour.png

about:
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  template: solana
  image: assets/logos/GA-REANNZ-wide-colour.png
---


::: {.callout-note}
## UPCOMING WORKSHOPS

**April 2026**   

- [Introduction to Bash scripting and HPC job scheduling](portfolio.qmd#bash-script-hpc-job) (23.04.2026). *Registrations closed.*

**May 2026**  

- [Reproducibility with Git and Quarto](portfolio.qmd#git-and-quarto). (13-14.05.2026).  
- Reproducible Bioinformatics with Nextflow and nf-core. (Late May, date TBC). 

**Other workshops**

*See the [National Training Calendar](https://www.reannz.co.nz/products-and-services/training-and-consultancy/training/training-calendar) maintained by REANNZ for more training opportunities*
:::

\

## Overview of the Bioinformatics Training Programme

The Genomics Aotearoa Bioinformatics Training Programme aims to upskill the research community of Aotearoa in the rapidly growing field of bioinformatics.

Training is offered through a portfolio of free, interactive workshops instructed by experts. Workshop material covers basic coding for beginners to highly advanced, specialised workflows. 

We work closely with our partners at REANNZ ([Research and Education Advanced Network New Zealand](https://www.reannz.co.nz/)), who have custom built a digital training platform to host workshops. When you join a training session, either in person or over zoom, you will access a digital environment with everything you need. No installations, no software requirements, all you need is an internet connection. 

Since its inception in 2019, Genomics Aotearoa's training programme has hosted more than 120 workshops reaching more than 2,400 participants.

## Workshop structure, style and expectation

Our training workshops are interactive live-coding events. One or more instructors (subject matter experts who have received formal teaching training) will demonstrate by writing code in real-time while attendees follow along. Instructors provide details about what they are doing and explain the decision making and thought processes that they are going through. Attendees will follow along and work through all code at the same time as the Instructor. Short exercises, either for individuals or groups, will reinforce your learning. All workshops will also have one or more Helpers: experienced members of the training community or subject matter experts who are on hand to answer questions and solve issues as they arise. Helpers ensure that no attendee is left behind and that everyone is able to complete tasks in a timely manner. 

All you will need to complete the workshop is a computer with an internet connection and a web browser. All workshop material, which includes written notes that cover all main points, code examples, and tasks (as well as their solutions), is provided in advance and is freely available - visit our [Workshop Portfolio](portfolio.qmd) page.

Workshops are either in person or online (zoom), and are typically run across one day (10am - 4pm) or two days (9am - 1pm).   

All workshops are run under The Carpentries [Code of Conduct](https://docs.carpentries.org/topic_folders/policies/code-of-conduct.html) to promote a safe and inclusive working environment. 

## Are you the right person to attend our training?  

If you are doing, or will be doing, research in Aotearoa that requires bioinformatics tools or skills, you are the right person to attend our training. We have workshops suitable for all skill levels: many of our attendees have their first interaction with any form of coding or programming lanugage during our workshops. 

Whether you are an absolute beginner who has not yet started any bioinformatics, or an experienced user looking to start quickly with a specialist method, we can help. Still have questions? [Contact us](ContactUs.qmd)


## How do I sign up? 

Workshops are advertised approximately two weeks in advance by email, which will contain a link to register to the workshop via Eventbrite. You can sign up for the training advertising emails through the [Genomics Aotearoa mailing list](https://www.genomics-aotearoa.org.nz/news-events/subscribe-our-updates).




## Past workshops

::: panel-tabset
### 2026

**March**   
- RNA-seq Data Analysis (25-26.03.2026)  
- Visualisation with ggplot2 (11.03.2026)   

**February**  
- Introduction to R (25.02.2026)  
- Introduction to shell (18.02.2026)  
 

### 2025

**November**    
- Otago Bioinformatics Spring School (17-21.11.2025)    

**October**  
- Reproducibility with Git and Quarto (23-24.10.2025)     
- Introduction to R (15.10.2025)  

**September**  
- RNAseq Data Analysis (17-18.09.2025)  
- Visualisation with ggplot2 (11.09.2025)  
- Introduction to R (10.09.2025)  

**August**  
- Intermediate R (27-28.08.2025) 

**July**  
- Intermediate Shell (30.07.2025)  

**June**  
- RNA-seq Data Analysis (24-25.06.2025)  
- Visualisation with ggplot2 (18.06.2025)  
- Introduction to R (17.06.2025)  

**May**  
- Introduction to Quarto (29.05.2025)  
- Git/github/version control (28.05.2025)  
- Visualisation workshop (21.05.2025)  
- Microbial Genome Assembly (13-14.05.2025)  

**April**  
- Intermediate Shell (16.04.2025)  
- Introduction to Bash (15.04.2025)  

**March**  
- Visualization with ggplot (26.03.2025)  
- RNA-seq Data Analysis (12.03.2025)  

**February**  
- Intermediate R (25.02.2025)  
- Introduction to R (19.02.2025)  
- Introduction to Shell (04.02.2025)  

### 2024
**November**  
- Otago Bioinformatics Spring School (18–22.11.2024)  

**October**  
- Introduction to R (22.10.2024)  
- RNA-seq workshop (15–16.10.2024)  
- RNA-seq workshop (8–9.10.2024)  

**September**  
- Metagenomics Summer School (3–6.09.2024)  

**August**  
- INDIGIDATA - Coding - Intro to Shell (27.08.2024)  
- Introduction to Bash and HPC Job Scheduler (21.08.2024)  
- Intermediate shell for Bioinformatics (07.08.2024)  

**July**  
- Introduction to shell (31.07.2024)  
- Intermediate R (24.07.2024)  
- Introduction to R (17.07.2024)  

**June**  
- Long-read assembly (12.06.2024)  
- Reproducible Bioinformatics Workflows with Nextflow and nf-core (05.06.2024)  

**May**  
- RNA-seq workshop (22.05.2024)  
- singleCell-RNASeq (08, 09, 15, 16.05.2024)  
- Introduction to Containers + Nextflow developer (02.05.2024)  

**April**  
- Introduction to R (24.04.2024)   
- Intermediate Shell for Bioinformatics (16.04.2024)  
- Intermediate R for Data Analysis (10.04.2024)  

**March**  
- Introduction to Bash Scripting and HPC Job Scheduler (27.03.2024)  
- RNA-seq Data Analysis (20.03.2024)  
- Long-read Genome Assembly (06.03.2024)

**February**  
- Introduction to R (28.02.2024)  
- Introduction to the Command Line (Bash) (14.02.2024)  

### 2023

**November**  
- Otago Bioinformatics Spring School (27.11–01.12.2023)  
- NextFlow - GA Annual Meeting (20.11.2023)  
- Intermediate R (09.11.2023)  

**October**  
- Reproducible Bioinformatics Workflows with Nextflow and nf-core (11–12.10.2023)  

**September**  
- Intermediate shell for Bioinformatics (27.09.2023)  
- Intermediate R (21.09.2023)  
- Metagenomics Summer School (5–8.09.2023)  
- INDIGIDATA - Coding - Intro to Shell (22.08.2023)  

**August**  
- MPI PHEL_HTS: 2023 Level_1 series (14–15.08.2023)  
- Outlier Analysis (09.08.2023)  
- Introduction to Bash and HPC Job Scheduler (02.08.2023)  

**July**  
- Constructing PanGenome Graphs (26.07.2023)  
- Intermediate shell for Bioinformatics (18.07.2023)  
- Imputation Workshop (07.07.2023)  
- Long-read assembly (4–6.07.2023)  

**June**  
- RNA-seq workshop (15.06.2023)  
- Introduction to R (14.06.2023)  

**May**  
- Introduction to R (18.05.2023)  
- Outlier Analysis (10–11.05.2023)  

**April**  
- Introduction to Bash and HPC Job Scheduler (13.04.2023)  

**March**  
- RNA-seq workshop (22.03.2023)  
- Introduction to R (14.03.2023)  
- Genomics Data Carpentry (08–09.03.2023) 

### 2022

**December**  
- Metagenomics Summer School (29.11–02.12.2022)  

**November**  
- Otago Bioinformatics Spring School (21–25.11.2022)  

**November**  
- RNA-seq workshop (01.11.2022)  

**October**  
- R for Genomics (25.10.2022)  

**September**  
- Scaling Gene Regulatory Networks Simulations (21–22.09.2022)  
- Intermediate-Advanced shell for Bioinformatics (15.09.2022)  

**May**  
- Data Carpentry (R for Genomics) (27.05.2022)  
- Snakemake workshop (12.05.2022)  
- RNA-seq workshop (10.05.2022)  

**April**  
- Data Carpentry (R for Genomics) (13.04.2022)  
- Introduction to Bash and HPC Job Scheduler (12.04.2022)  

**March**  
- Genomics Data Carpentry (29–30.03.2022)  
- Data Carpentry (R for Genomics) (09.03.2022)  
- Introduction to Bash and HPC Job Scheduler (08.03.2022)  

**February**  
- RNA-seq workshop (24.02.2022)  
- Data Carpentry (R for Genomics) (23.02.2022)  

**January**  
- Genomics Data Carpentry (26–27.01.2022)  


### 2021

**December**  
- Scaling Gene Regulatory Networks Simulations (01–02.12.2021)  

**November**  
- Otago Bioinformatics Spring School (22–26.11.2021)  

**October**  
- Data Carpentry (R for Genomics) (19.10.2021)  

**September**  
- Genomics Data Carpentry (21–22.09.2021)  
- RNA-seq workshop (08.09.2021)  

**August**  
- Data Carpentry (R for Genomics) (25.08.2021)  
- Imputation Workshop (11.08.2021)  

**July**  
- Genomics Data Carpentry (27–28.07.2021)  
- PHEL_HTS - Session 3.1 (23.07.2021)  
- PHEL_ETS (01.07.2021) 

**June**  
- eDNA (24–25.06.2021)  
- PHEL_HTS - Session 2 (23.06.2021)  
- PHEL_HTS - Session 1 (03.06.2021)  

**May**  
- Genomics Data Analysis (RNA-Seq + Intro to R + GDC Variant Calling) (27–28.05.2021)  
- RNA-seq workshop (18–19.05.2021)  

**April**  
- GA Post (29–30.04.2021)  
- RNA-seq workshop (09.04.2021)  

**March**  
- Hi-C workshop (25–26.03.2021)  
- Genomics Data Carpentry (16–17.03.2021)  


### 2020

**November**  
- Otago Bioinformatics Spring School (23–27.11.2020)  
- Metagenomics Summer School (17–20.11.2020)  

**October**  
- RNA-seq workshop (30.10.2020)  

**September**  
- Imputation Workshop (28.09.2020)  
- RNA-seq workshop (03.09.2020)  

**August**  
- Genomics Data Carpentry (26–27.08.2020)  
- GA4GH API demo (04.08.2020)  
- RNA-seq workshop (30.07.2020)  

**June**  
- RNA-seq workshop (25.06.2020)  

**May**  
- Genomics Data Carpentry (12–13.05.2020)  

**April**  
- Genomics Data Carpentry (15–16.04.2020)  
- Genomics Data Carpentry (31.03–01.04.2020)  

**March**  
- Genomics Data Carpentry (04–05.03.2020)  

**January**  
- Genomics Data Carpentry (28–29.01.2020)  


### 2019

**December**  
- Metagenomics Summer School (10–13.12.2019)  

**November**  
- Genomics Data Carpentry (21–22.11.2019)  

**October**  
- Genomics Data Carpentry (10–11.10.2019)  

**September**  
- Genomics Data Carpentry (19–20.09.2019)  

**August**  
- Genomics Data Carpentry (21–22.08.2019)  
- GA-NeSI: Best Practises (09.08.2019)  
- Genomics Data Carpentry (01–02.08.2019)  

**July**  
- Genomics Data Carpentry (04–05.07.2019)  

**June**  
- Introduction to NeSI/HPC - Bioinformatics (21.06.2019)  
- Genotyping by Sequencing workshop: GBS/RAD (11–12.06.2019)  
:::