New publication: fast human read decontamination for SARS-CoV-2 Philip Fowler, 16th May 202216th May 2022 0 shares ReadItAndKeep is a new human-read decontamination algorithm that works by mapping the reads in a FASTQ file to the reference SARS-CoV-2 genome. This works because SARS-CoV-2 genetic variation is not so high as to lead to reads being incorrectly discarded and means the algorithm, which relies on minimap2, is both fast and has a low memory footprint. Published in Bioinformatics last week Share this:Twitter Related clinical microbiology computing gpas
New publication: determining novel mechanisms of bedaquiline resistance 30th March 20235th April 2023 A new paper with Lindsay Sonnenkalb as first-author has just been published in The Lancet… Share this:Twitter Read More
computing Running my first Software Carpentry workshop 1st November 2012 “Can you email me that script you used to do your analysis?” “Sure. It isn’t… Share this:Twitter Read More
computing Software Carpentry Feedback 1st November 2012 As well as asking the attendees how they thought the workshop had gone, I sent them… Share this:Twitter Read More