Category Archives: Blog

Field-based, real-time metagenomics and phylogenomics for responsive pathogen detection: lessons from nanopore analyses of Acute Oak Decline (AOD) sites in the UK.

Talk presented at the UK-India Joint Bioinformatics Workshop, Pirbright Institute, 09 Feb 2018 Abstract: In a globalised world of increasing trade, novel threats to animal and plant health, as well as human diseases, can cross political and geographical borders spontaneously … Continue reading

Posted in Publications, Science, Talks | Tagged , , , , , , , , | Leave a comment

Real-time phylogenomics or ‘Some interesting problems in genomic big data’

Talk given at a technology/informatics company, London, Feb 2018. An overview of contemporary advances and remaining problems in big-data biology, especially phylogenomics. Tweet this Digg Post to LinkedIn Slashdot Stumble This

Posted in Publications, Science, Talks | Tagged , , , , , , , | Leave a comment

Tent-seq: the paper (aka ‘field-based, real-time phylogenomics’)

Really proud to report that the first of our bona fide real-time phylogenomics papers is now out in Scientific Reports! In the paper we managed to show a number of things that are potentially really exciting, and I’ll get to … Continue reading

Posted in Science | Tagged , , , , , , , | Leave a comment

What is ‘real-time’ phylogenomics?

Over the past few years I’ve been developing research, which I collectively refer to as ‘real-time phylogenomics’ – and this is the name of our mini-site for MinION-based rapid identification-by-sequencing. Since our paper on this will hopefully be published soon, … Continue reading

Posted in Science | Tagged , , , , , | Leave a comment

Some aspects of BLASTing long-read data

Quick note to explain some of the differences we’ve observed working with long-read data (MinION, PacBio) for sample ID via BLAST. I’ll publish a proper paper on this, but for now: Long reads aren’t just a bit longer than Illumina data, … Continue reading

Posted in Coding, Science | Tagged , , , , , | Leave a comment

Only Corbyn can save the Left

Labour go into this election with the dice stacked against Corbyn, as the Tories intended. But here’s the thing – he’s only an election liability *if* you believe he can win. But in fact everyone – surely even the man … Continue reading

Posted in Activism | Tagged , , , , , | Leave a comment

Step-by-step: Raspberry Pi as a wifi bridge, plus a (really) low-spec media centre…

I’ll keep this brief, really so, because this is mainly an aide-memoire for when this horrific bodge breaks in the next, ooh, month or so. But, for context: The problem: Our office/studios are in a shed at the bottom of the … Continue reading

Posted in Blog, Coding | Tagged , , , , , | Leave a comment

‘Stretched resources’ applies to parliamentarians, too…

I listened to a sad story on BBCR4 today this morning – a grieving mother can’t bury her daughter, murdered, because there’s no body – in years of searching none has been found. The killer isn’t co-operating (they don’t have … Continue reading

Posted in Activism, Blog | Tagged , , , | Leave a comment

Science and (small) business

Over the last 10-20 years there’s been a revolution in academic science (or should that be ‘coup’?) where many aspects of the job have been professionalised and formalised, especially project management but management in general. This generally includes tools like … Continue reading

Posted in Activism, Blog, Science | Tagged , , , | Leave a comment

Making progress down the road

Too many laws and customs of driving make speed more important than safety, from the driving instructors’ “make good progress down the road” (e.g. “hurry the fuck up”, which most drivers internalise as “drive at least as fast as the … Continue reading

Posted in Activism, Blog, Cycling | Tagged , , , , , | Leave a comment