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Maast genotype concordance between genome and long reads. In h , the population structure of H. pylori was reconstructed from 4 strains with whole genome sequence (WG) and long reads (SRA). * kSNP3 and Parsnp runs > 48 h on 5000 genomes and were manually terminated, and we plot a runtime of 48 h with the note that no output was produced

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