Simon Gladman reports from a recent visit to the Canadian Integrated Rapid Infectious Disease Analysis project (IRIDA) where they are building an open source, end-to-end platform for infectious disease genomics epidemiology. Simon worked with the team to incorporate the PHAC’s IRIDA system into the GVL and test out it’s functionality. A working example. This is […]
Torsten Seemann is the Lead on this project for Melbourne Bioinformatics
|Melbourne Bioinformatics||LEAD INSTITUTE|
|University of Melbourne||MEMBER INSTITUTE|
|University of Queensland||SUBSCRIBER|
|Peter Doherty Institute for Infection and Immunity||SUBSCRIBER|
Bioplatforms Australia contract, with additional funding from Nectar, both funded by NCRIS
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Public health authorities and researchers around the world are working hard to implement a new ‘gold standard’ in public health outbreak investigations, using the refined analytical tools now available to microbiologists through next generation sequencing technologies. Our experts are enhancing the Australian-made GVL to make genomic data analysis more accessible to microbiologists and rolling it out to colleagues around the world.
- Read more about the history of the GVL project at Nectar
- Genomics Virtual Laboratory
- Galaxy in public health – the microbial genomics virtual laboratory.
If you are a student or teacher wanting to learn more about this work, there is a terrific Bacterial Identification Virtual Lab online at the Howard Hughes Medical Institute’s website. And in this video educator tip, Indiana teacher Sherry Annee describes how she uses the Lab to introduce the concepts of DNA sequencing, PCR, and BLAST database searches to her students.
A 2-day COMBINE workshop was held at UWA over 22/23 November 2016, facilitated by VLSCI’s Simon Gladman and Anna Syme. This workshop covered Nectar resources, Galaxy, genome assembly and annotation, variant calling and RNA-Seq analysis. Of the 31 participants, all were very pleased with the whole course: I thought this was an excellent workshop, I […]
Funded in 2016, this three-year NHMRC partnership grant is led out of ANU by Assoc Prof Martyn Kirk, with collaborators from public agencies and institutions around Australia and New Zealand. UNDERSTANDING THE SOURCES OF CAMPYLOBACTER IN AUSTRALIA Campylobacter is a key cause of foodborne disease globally, with Australian rates of reported illness amongst the highest […]
Simon Gladman has now published a new version of the mGVL. It’s now at 0.11-1 and is based on GVL 4.1. Following loads of testing while at the Galaxy conference (#GCC2016) it now has: the newest version of Galaxy – including embedded JBrowse (as a tool) some image updates a new GVL extension system (for […]
VLSCI announces Australian-made Microbial Genomics Virtual Laboratory (microGVL) being installed for CLIMB project in UK.