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Fowler Lab
Fowler Lab

Predicting antibiotic resistance de novo

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

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