Producing polished prokaryotic pangenomes with the Panaroo pipeline.
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ABSTRACT:
SUBMITTER: Tonkin-Hill G
PROVIDER: S-EPMC7376924 | biostudies-literature | 2020 Jul
REPOSITORIES: biostudies-literature
Publications
Producing polished prokaryotic pangenomes with the Panaroo pipeline.
Tonkin-Hill Gerry G MacAlasdair Neil N Ruis Christopher C Weimann Aaron A Horesh Gal G Lees John A JA Gladstone Rebecca A RA Lo Stephanie S Beaudoin Christopher C Floto R Andres RA Frost Simon D W SDW Corander Jukka J Bentley Stephen D SD Parkhill Julian J
Genome biology 20200722 1
Population-level comparisons of prokaryotic genomes must take into account the substantial differences in gene content resulting from horizontal gene transfer, gene duplication and gene loss. However, the automated annotation of prokaryotic genomes is imperfect, and errors due to fragmented assemblies, contamination, diverse gene families and mis-assemblies accumulate over the population, leading to profound consequences when analysing the set of all genes found in a species. Here, we introduce ...[more]
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