Recent blog posts
Using Conda and Mamba on Pawsey
Using Conda (or Mamba) on Pawsey [!NOTE] This is part of our series on Pawsey that are written by users - not by Pawsey staff. There are certainly other,...
Assembling genomes on Pawsey using Autocycler
Autocycler is undoubtedly the best assembler, especially for Oxford Nanopore sequencing of bacterial genomes. You often get complete circular genomes. We ar...
UniRef50 or UniRef100 for metagenomics? Sometimes faster is not just faster
In metagenomics, we often face a familiar trade-off: do we use a smaller, more clustered reference database that runs quickly, or a larger, more detailed dat...
Creating a conda environment for GPU computing in Jupyter
After a few mis-steps, here is how I set up a conda environment to use in Jupyter with tensorflow, pytorch, and using the GPU. As a note, I do this on the n...
Migrating Snakemake
How to migrate from snakemake 7 to snakemake 8
Presentations and posters at Viruses of Microbes 2024
FAME lab at Viruses of Microbes Meeting, Cairns 2024
FAMEous researchers at ASM 2024
Paparazzi spotted FAMEous researchers at Australian Society of Microbiology in Brisbane. Professor Dinsdale chaired the shark infested Environmental Microbes...
How to run an R Jupyter notebook on a deepthought node
This blog post covers how to set up an R environment to run on a deepthought node. This is useful if you have analysis to do in R that requires too much memo...
Phage genome sequencing for host prediction
Global Phage Host Prediction Consortium White Paper Robert Edwards, Flinders University September 2023 For comment Please contact Rob Edwards (robert.edward...
Converting a phyloseq object to text files
How to convert a phyloseq object from R to tab-separated values that can be read anywhere