I’ve been working on this for the last few months and very happy that we can now share our plans. Through a very generous donation by ORACLE, a group of researchers led by ModMedMicro at Oxford, are developing a cloud-based clinical microbiology genetics processing service, called the Global Pathogen Analysis System (GPAS). GPAS is still […]
The idea for this paper arose during talking over coffee at the BioExcel Alchemical Free Energy workshop in May 2019. We’d previously shown that alchemical free energy methods could successfully predict which mutations in S. aureus DHFR confer resistance to trimethoprim (and crucially, which do not). That is all well and good, but to do […]
As I’ve described here, here and here, I ran a Hackathon instead of the more traditional project in the third week of the Bioinformatics module course for around 30 students from the University of Oxford Interdisciplinary Biosciences programme in November 2017. One of the students, Ellen Pasternack, wrote a guest blog post for Microsoft which […]
In this post, I’ll spell out some of the problems we encountered using Microsoft Azure to run a 3-week course for about 30 postgraduates in a typical “computer lab”. As you’ll see, a group of cloud-naive highly intelligent postgraduates are capable of breaking nearly anything and, perhaps, might constitute the perfect resilience test for your […]
This is the second year that I have organised a three-week course on Bioinformatics from PhD students in their first year of the Oxford Interdisciplinary Biosciences programme. As last year, I run the third week as a Hackathon and in preparation the students had to choose a scientific paper in the first week, form teams […]
Last year I took over coordinating a three-week Bioinformatics module for the Interdisciplinary Bioscience Doctoral Training Centre in Oxford. Much of the course is taken up with computational practicals which we usually run on the low-spec desktop PCs that they have in the DTC. This year though we have been fortunate to receive a grant […]