Repositories list

• BioinformaticsTrainingProgramme

  Public
  Material for bioinformatics training programme website

  bioinformaticstrainingprogramme-website

  bioinformaticstrainingprogramme-website

  CSS

  •00 forks in GenomicsAotearoa/BioinformaticsTrainingProgramme•00 stars in GenomicsAotearoa/BioinformaticsTrainingProgramme•00 issues in GenomicsAotearoa/BioinformaticsTrainingProgramme•00 pull requests in GenomicsAotearoa/BioinformaticsTrainingProgramme•Updated Oct 27, 2026Oct 27, 2026

• metagenomics_summer_school

  Public
  Course materials for the Genomics Aotearoa Metagenomics Summer School

  workshopworkshop-materialenvironmental-metagenomics

  workshopworkshop-materialenvironmental-metagenomics

  GNU General Public License v3.0

  •3232 forks in GenomicsAotearoa/metagenomics_summer_school•6767 stars in GenomicsAotearoa/metagenomics_summer_school•44 issues in GenomicsAotearoa/metagenomics_summer_school•00 pull requests in GenomicsAotearoa/metagenomics_summer_school•Updated Oct 27, 2026Oct 27, 2026

• RNA-seq-data-analysis-workflow-NZ

  Public
  RNAseq workshop using an NZ endemic wrasse species.

  SCSS

  •11 fork in GenomicsAotearoa/RNA-seq-data-analysis-workflow-NZ•11 star in GenomicsAotearoa/RNA-seq-data-analysis-workflow-NZ•00 issues in GenomicsAotearoa/RNA-seq-data-analysis-workflow-NZ•00 pull requests in GenomicsAotearoa/RNA-seq-data-analysis-workflow-NZ•Updated Oct 27, 2026Oct 27, 2026

• GA-instructors-maintainers-guide

  Public

  GenomicsAotearoa/GA-instructors-maintainers-guide’s past year of commit activity
  A guide for setting-up, developing and maintaining GA workshops, for instructors and maintainers

  resources

  resources

  Lua

  •00 forks in GenomicsAotearoa/GA-instructors-maintainers-guide•00 stars in GenomicsAotearoa/GA-instructors-maintainers-guide•00 issues in GenomicsAotearoa/GA-instructors-maintainers-guide•00 pull requests in GenomicsAotearoa/GA-instructors-maintainers-guide•Updated Oct 21, 2026Oct 21, 2026

• RNA-seq-data-analysis-workflow

  Public
  A workflow for analysing RNA-seq data, aimed at new users who want to understand the methods available.

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  CSS

  •

  GNU General Public License v3.0

  •11 fork in GenomicsAotearoa/RNA-seq-data-analysis-workflow•00 stars in GenomicsAotearoa/RNA-seq-data-analysis-workflow•22 issues in GenomicsAotearoa/RNA-seq-data-analysis-workflow•00 pull requests in GenomicsAotearoa/RNA-seq-data-analysis-workflow•Updated Oct 20, 2026Oct 20, 2026

• Introduction-to-R

  Public
  Introduction to R

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  Creative Commons Zero v1.0 Universal

  •22 forks in GenomicsAotearoa/Introduction-to-R•22 stars in GenomicsAotearoa/Introduction-to-R•00 issues in GenomicsAotearoa/Introduction-to-R•00 pull requests in GenomicsAotearoa/Introduction-to-R•Updated Oct 12, 2026Oct 12, 2026

• introduction-to-shell

  Public
  introduction to shell

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •

  GNU General Public License v3.0

  •11 fork in GenomicsAotearoa/introduction-to-shell•00 stars in GenomicsAotearoa/introduction-to-shell•00 issues in GenomicsAotearoa/introduction-to-shell•00 pull requests in GenomicsAotearoa/introduction-to-shell•Updated Sep 30, 2026Sep 30, 2026

• High-quality-genomes

  Public
  This repository aims to hosting workflows/codes that have been developed for GA high-quality-genome projects.

  high-quality-genomes

  high-quality-genomes

  HTML

  •1010 forks in GenomicsAotearoa/High-quality-genomes•77 stars in GenomicsAotearoa/High-quality-genomes•00 issues in GenomicsAotearoa/High-quality-genomes•00 pull requests in GenomicsAotearoa/High-quality-genomes•Updated Sep 29, 2026Sep 29, 2026

• hts_workshop_mpi

  Public
  Training materials for the 2025 HTS Plant Health and Environment Laboratory workshop

  workshop-material

  workshop-material

  HTML

  •44 forks in GenomicsAotearoa/hts_workshop_mpi•33 stars in GenomicsAotearoa/hts_workshop_mpi•00 issues in GenomicsAotearoa/hts_workshop_mpi•00 pull requests in GenomicsAotearoa/hts_workshop_mpi•Updated Sep 23, 2026Sep 23, 2026

• reproducibility_with_git_and_quarto

  Public
  A two day workshop on reproducibility with Git and Quarto

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  JavaScript

  •

  GNU General Public License v3.0

  •00 forks in GenomicsAotearoa/reproducibility_with_git_and_quarto•22 stars in GenomicsAotearoa/reproducibility_with_git_and_quarto•00 issues in GenomicsAotearoa/reproducibility_with_git_and_quarto•00 pull requests in GenomicsAotearoa/reproducibility_with_git_and_quarto•Updated Sep 18, 2026Sep 18, 2026

• data-manipulation-with-tidyverse

  Public
  WORK IN PROGRESS. Workshop material on genomic data manipulation with tidyverse tools in R

  CSS

  •00 forks in GenomicsAotearoa/data-manipulation-with-tidyverse•00 stars in GenomicsAotearoa/data-manipulation-with-tidyverse•11 issue in GenomicsAotearoa/data-manipulation-with-tidyverse•00 pull requests in GenomicsAotearoa/data-manipulation-with-tidyverse•Updated Sep 10, 2026Sep 10, 2026

• Pangenome-Graphs-Workshop

  Public
  This repository contains material to construct pangenome graphs for a small bacteria dataset detailing every step in the Nesi environment.

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •

  GNU General Public License v2.0

  •44 forks in GenomicsAotearoa/Pangenome-Graphs-Workshop•1111 stars in GenomicsAotearoa/Pangenome-Graphs-Workshop•99 issues in GenomicsAotearoa/Pangenome-Graphs-Workshop•11 pull request in GenomicsAotearoa/Pangenome-Graphs-Workshop•Updated Aug 26, 2026Aug 26, 2026

• long-read-assembly

  Public
  Long-read assembly workshop

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  CSS

  •

  GNU General Public License v3.0

  •66 forks in GenomicsAotearoa/long-read-assembly•55 stars in GenomicsAotearoa/long-read-assembly•22 issues in GenomicsAotearoa/long-read-assembly•00 pull requests in GenomicsAotearoa/long-read-assembly•Updated Aug 26, 2026Aug 26, 2026

• long-read-assembly-one-day

  Public
  Long-read assembly workshop modified to run in a single day

  HTML

  •

  GNU General Public License v3.0

  •66 forks in GenomicsAotearoa/long-read-assembly-one-day•11 star in GenomicsAotearoa/long-read-assembly-one-day•00 issues in GenomicsAotearoa/long-read-assembly-one-day•00 pull requests in GenomicsAotearoa/long-read-assembly-one-day•Updated Aug 26, 2026Aug 26, 2026

• Workshop-Bash_Scripting_And_HPC_Job_Scheduler

  Public
  A workshop to get you started with automating your genomic data analysis work in a High Performance Computing environment

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  MIT License

  •44 forks in GenomicsAotearoa/Workshop-Bash_Scripting_And_HPC_Job_Scheduler•33 stars in GenomicsAotearoa/Workshop-Bash_Scripting_And_HPC_Job_Scheduler•11 issue in GenomicsAotearoa/Workshop-Bash_Scripting_And_HPC_Job_Scheduler•00 pull requests in GenomicsAotearoa/Workshop-Bash_Scripting_And_HPC_Job_Scheduler•Updated Aug 25, 2026Aug 25, 2026

• Gene_Regulatory_Networks_Simulation_Workshop

  Public
  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •66 forks in GenomicsAotearoa/Gene_Regulatory_Networks_Simulation_Workshop•66 stars in GenomicsAotearoa/Gene_Regulatory_Networks_Simulation_Workshop•11 issue in GenomicsAotearoa/Gene_Regulatory_Networks_Simulation_Workshop•00 pull requests in GenomicsAotearoa/Gene_Regulatory_Networks_Simulation_Workshop•Updated Aug 25, 2026Aug 25, 2026

• genomics-mini-series

  Public
  workshop-material

  workshop-material

  00 forks in GenomicsAotearoa/genomics-mini-series•00 stars in GenomicsAotearoa/genomics-mini-series•11 issue in GenomicsAotearoa/genomics-mini-series•00 pull requests in GenomicsAotearoa/genomics-mini-series•Updated Aug 10, 2026Aug 10, 2026

• shell-for-bioinformatics

  Public
  Intermediate-Advanced shell for Bioinformatics

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •

  GNU General Public License v3.0

  •66 forks in GenomicsAotearoa/shell-for-bioinformatics•66 stars in GenomicsAotearoa/shell-for-bioinformatics•77 issues in GenomicsAotearoa/shell-for-bioinformatics•00 pull requests in GenomicsAotearoa/shell-for-bioinformatics•Updated Aug 7, 2026Aug 7, 2026

• visualization_day

  Public
  Visualisation is more than just the code used to make a plot.

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •00 forks in GenomicsAotearoa/visualization_day•00 stars in GenomicsAotearoa/visualization_day•22 issues in GenomicsAotearoa/visualization_day•00 pull requests in GenomicsAotearoa/visualization_day•Updated Jul 24, 2026Jul 24, 2026

• data-management-resources

  Public
  Repo supporting the manuscript 'Journeying towards best practice data management in biodiversity genomics'.

  genomicsresourcesdata-management+ 4

  genomicsresourcesdata-managementfair-principlesdigital-sequence-informationcare-principlesindigenous-data-sovereignty

  HTML

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  Creative Commons Attribution 4.0 International

  •00 forks in GenomicsAotearoa/data-management-resources•44 stars in GenomicsAotearoa/data-management-resources•00 issues in GenomicsAotearoa/data-management-resources•00 pull requests in GenomicsAotearoa/data-management-resources•Updated Jul 21, 2026Jul 21, 2026

• RNA-seq-workshop-on-demand

  Public archive
  This workshop is now deprecated. RNA-seq Data Analysis workshop, modified to run on the OnDemand training platform.

  HTML

  •

  Apache License 2.0

  •00 forks in GenomicsAotearoa/RNA-seq-workshop-on-demand•00 stars in GenomicsAotearoa/RNA-seq-workshop-on-demand•00 issues in GenomicsAotearoa/RNA-seq-workshop-on-demand•00 pull requests in GenomicsAotearoa/RNA-seq-workshop-on-demand•Updated Jul 7, 2026Jul 7, 2026

• Intermediate-R

  Public
  Intermediate R workshop material

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •

  GNU General Public License v3.0

  •33 forks in GenomicsAotearoa/Intermediate-R•44 stars in GenomicsAotearoa/Intermediate-R•22 issues in GenomicsAotearoa/Intermediate-R•00 pull requests in GenomicsAotearoa/Intermediate-R•Updated Jul 3, 2026Jul 3, 2026

• 2026-06-10-genomics-r-intro-online

  Public
  Data Analysis and Visualization with R for Genomics

  HTML

  •

  Other

  •00 forks in GenomicsAotearoa/2026-06-10-genomics-r-intro-online•00 stars in GenomicsAotearoa/2026-06-10-genomics-r-intro-online•00 issues in GenomicsAotearoa/2026-06-10-genomics-r-intro-online•00 pull requests in GenomicsAotearoa/2026-06-10-genomics-r-intro-online•Updated Jun 3, 2026Jun 3, 2026

• Nextflow_Workshop

  Public
  A workshop to help you integrate Nextflow in your analysis workflows for reproducible and scalable pipelines.

  workshop-materialbioinformaticstrainingprogramme

  workshop-materialbioinformaticstrainingprogramme

  HTML

  •

  GNU General Public License v3.0

  •66 forks in GenomicsAotearoa/Nextflow_Workshop•44 stars in GenomicsAotearoa/Nextflow_Workshop•00 issues in GenomicsAotearoa/Nextflow_Workshop•11 pull request in GenomicsAotearoa/Nextflow_Workshop•Updated Jun 1, 2026Jun 1, 2026

• genomic-data-carpentry-nz

  Public
  WORK IN PROGRESS

  workshop-material

  workshop-material

  CSS

  •00 forks in GenomicsAotearoa/genomic-data-carpentry-nz•00 stars in GenomicsAotearoa/genomic-data-carpentry-nz•66 issues in GenomicsAotearoa/genomic-data-carpentry-nz•00 pull requests in GenomicsAotearoa/genomic-data-carpentry-nz•Updated May 8, 2026May 8, 2026

• NZIBO-bioinformatics-workshop-2026

  Public
  workshop-material

  workshop-material

  R

  •00 forks in GenomicsAotearoa/NZIBO-bioinformatics-workshop-2026•00 stars in GenomicsAotearoa/NZIBO-bioinformatics-workshop-2026•00 issues in GenomicsAotearoa/NZIBO-bioinformatics-workshop-2026•00 pull requests in GenomicsAotearoa/NZIBO-bioinformatics-workshop-2026•Updated Apr 10, 2026Apr 10, 2026

• workflow.DNA_virus_niche_adaptations

  Public
  Python

  •

  MIT License

  •00 forks in GenomicsAotearoa/workflow.DNA_virus_niche_adaptations•00 stars in GenomicsAotearoa/workflow.DNA_virus_niche_adaptations•00 issues in GenomicsAotearoa/workflow.DNA_virus_niche_adaptations•00 pull requests in GenomicsAotearoa/workflow.DNA_virus_niche_adaptations•Updated Mar 23, 2026Mar 23, 2026

• GenomicsAotearoa.github.io

  Public
  Code and files for Genomics Aotearoa github.io website. **Now deprecated**

  ga-github-website

  ga-github-website

  22 forks in GenomicsAotearoa/GenomicsAotearoa.github.io•22 stars in GenomicsAotearoa/GenomicsAotearoa.github.io•00 issues in GenomicsAotearoa/GenomicsAotearoa.github.io•00 pull requests in GenomicsAotearoa/GenomicsAotearoa.github.io•Updated Mar 23, 2026Mar 23, 2026

• .github

  Public
  ga-github-website

  ga-github-website

  00 forks in GenomicsAotearoa/.github•00 stars in GenomicsAotearoa/.github•00 issues in GenomicsAotearoa/.github•00 pull requests in GenomicsAotearoa/.github•Updated Mar 23, 2026Mar 23, 2026

• Hoiho

  Public
  Scripts, Parameters, and Analyses for Hoiho Publication

  Jupyter Notebook

  •11 fork in GenomicsAotearoa/Hoiho•11 star in GenomicsAotearoa/Hoiho•00 issues in GenomicsAotearoa/Hoiho•00 pull requests in GenomicsAotearoa/Hoiho•Updated Jan 29, 2026Jan 29, 2026