Bioinformatics/Genomics
We are teaching more advanced courses and workshops in genomics and transcriptomics to help you get started to analyse your data. Example workshops include transcriptomics/RNA-seq gene expression analysis, variant calling, genome assembly, metagenomics/metabarcoding and others.
Links to some of our resources
- Computational Genomics Tutorial
- Tutorial on reproducible computational biology
- Tutorial on executing workflows (Snakemake) on NeSI HPC
- Up-skill yourself with our e-Learning collection
Software and Data Carpentry Workshops
We facilitate basic and more advanced hands-on computational workshops for scientists of all fields under the umbrella of the Software Carpentry and Data Carpentry foundation. A Software Carpentry workshop usually is a 2-day hands-on workshop teaching introductory skills whereas a Data Carpentry workshop teaches more advanced ans specialised skills. Examples of things we teach at a SWC workshop:
The Unix shell/command-line
The Unix shell ... helps people combine existing programs in new ways and automate repetitive tasks so they aren’t typing the same things over and over again. Use of the shell is fundamental to using a wide range of other powerful tools and computing resources (including “high-performance computing” supercomputers). [Software Carpentry]
Programming in R or Python
The best way to learn how to program is to do something useful, so this introduction to R/Python is built around a common scientific task: data analysis. Our real goal isn’t to teach you R/Python, but to teach you the basic concepts that all programming depends on. [Software Carpentry]
Version control with Git
Version control is the lab notebook of the digital world: it’s what professionals use to keep track of what they’ve done and to collaborate with other people. ... And it isn’t just for software: books, papers, small data sets, and anything that changes over time or needs to be shared can and should be stored in a version control system. [Software Carpentry]
Events // upcoming
- [ End 2019 ] Workshop: Towards Reproducible Computational Biology, Massey University Auckland
- [ End 2019 ] Software Carpentry Workshop, Massey University Auckland
Events // past
- [ 03 May 2019 ] Workshop: Version control and collaboration with Git, Massey University Auckland
- [ 29 June 2018 ] Workshop: Towards Reproducible Computational Biology, ResBaz, University of Auckland
- [ 14-15 Feb 2018 ] Software Carpentry Workshop, Massey University Auckland
- [ 10-11 Apr 2017 ] Software Carpentry Workshop, Massey University Auckland
- [ 8-10 Feb 2017 ] Software Carpentry Workshop, ResBaz, Massey University Palmerston North
- [ 7-8 June 2016 ] Software Carpentry Workshop, Massey University Auckland
- [ 2-4 Feb 2016 ] Software Carpentry Workshop at ResBaz 2016
- [ 28-29 Jan 2016 ] Software Carpentry Instructor Training
- [ 3-4 Nov 2015 ] Software Carpentry Workshop, Massey University Auckland
- [ Fall 2015 ] Bioinformatics workshop. Module part of 203.341
- [ Fall 2013 ] Transcriptomics using Next-Generation Sequencing
- [ Summer 2013 ] Introduction to Genomics and Bioinformatics
Contact
Dr. Sebastian Schmeier
Research Group Leader
Senior Lecturer in Bioinformatics/GenomicsMassey University
Auckland, New Zealand
+64 9 414 0800 (ext: 43538)