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Pandora: nucleotide-resolution bacterial pan-genomics with reference graphs.

Genome biology - 14 Sept 2021

Colquhoun Rachel M, Hall Michael B, Lima Leandro, Roberts Leah W, Malone Kerri M, Hunt Martin, Letcher Brice, Hawkey Jane, George Sophie, Pankhurst Louise, Iqbal Zamin

Abstract excerpt

We present pandora, a novel pan-genome graph structure and algorithms for identifying variants across the full bacterial pan-genome. As much bacterial adaptability hinges on the accessory genome, methods which analyze SNPs in just the core genome have unsatisfactory limitations. Pandora approximates a sequenced genome as a recombinant of references, detects novel variation and pan-genotypes multiple samples....

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Identifiers

PMID: 34521456
DOI: 10.1186/s13059-021-02473-1
PMCID: PMC8442373

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