New publication: fast human read decontamination for SARS-CoV-2 Philip Fowler, 16th May 202216th May 2022 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:TwitterBlueskyEmailLinkedInMastodon Related clinical microbiology computing gpas
New preprint: automatically building a better bedaquiline catalogue 31st January 202531st January 2025 A catalogue recording whether individual mutations confer resistance or not to specified antibiotics is a… Share this:TwitterBlueskyEmailLinkedInMastodon Read More
clinical microbiology New preprint: processing 3.9 million SARS-CoV-2 samples to make a consistent phylogenetic tree 7th May 20247th May 2024 Martin Hunt, Zam Iqbal and lots of others have written an epic preprint where they… Share this:TwitterBlueskyEmailLinkedInMastodon Read More
antimicrobial resistance New paper: quantitative measurement of effect of mutations on antibiotics in M. tuberculosis 15th January 202415th January 2024 The CRyPTIC project played a major role in the release by the WHO of their… Share this:TwitterBlueskyEmailLinkedInMastodon Read More