Benchmarking Bioinformatics Tools

Project description

We (and others) have written heaps of software for analysing DNA sequences from bacterial and phage genomes. But we don't know which tools work best, which questions they answer, or where they fail. This project will benchmark current and emerging tools for phage genome analysis, including tools for gene prediction, functional annotation, lifestyle prediction, host prediction, safety screening, and comparative genomics. We will work together to assemble test datasets, run selected tools, compare outputs, and evaluate performance. The project will produce practical guidance for researchers analysing phage genomes and contribute to the development of a new AI-based analytic toolbox for phage, bacterial, and metagenomic analysis. Work in our friendly and supportive group that includes Honours Students, PhD Students, and Postdocs. We love to travel the world and present our research.

Further information

For more information about our research, check out our lab website and the FAME group's website. Rob also has a whole YouTube channel about Computer Science and bioinformatics, including information on available bioinformatics careers.

Assumed knowledge

You should have a background in computer science, data science, bioinformatics, or computational biology. Some experience with command-line tools, Linux, Python, or R would be great but is not necessary. We'll teach you the basics of genomes, genes, proteins, and sequence databases during the project.

Note: You need to register interest in projects from different supervisors (not a number of projects with the one supervisor).
You must also contact each supervisor directly to discuss both the project details and your suitability to undertake the project.