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@article{north2002note,
title={A note on the calculation of empirical P values from Monte Carlo procedures},
author={North, Bernard V and Curtis, David and Sham, Pak C},
journal={The American Journal of Human Genetics},
volume={71},
number={2},
pages={439--441},
year={2002},
publisher={Cell Press}
}
@article{read1995inference,
title={Inference from binary comparative data},
author={Read, Andrew F and Nee, Sean},
journal={Journal of Theoretical Biology},
volume={173},
number={1},
pages={99--108},
year={1995},
publisher={Elsevier}
}
@article{maddison2000testing,
title={Testing character correlation using pairwise comparisons on a phylogeny},
author={MADDISON, WAYNE P},
journal={Journal of Theoretical Biology},
volume={202},
number={3},
pages={195--204},
year={2000},
publisher={Elsevier}
}
@article{brynildsrud2016rapid,
title={Rapid scoring of genes in microbial pan-genome-wide association studies with Scoary},
author={Brynildsrud, Ola and Bohlin, Jon and Scheffer, Lonneke and Eldholm, Vegard},
journal={Genome biology},
volume={17},
number={1},
pages={238},
year={2016},
publisher={BioMed Central}
}
@article{page2015roary,
title={Roary: rapid large-scale prokaryote pan genome analysis},
author={Page, Andrew J and Cummins, Carla A and Hunt, Martin and Wong, Vanessa K and Reuter, Sandra and Holden, Matthew TG and Fookes, Maria and Falush, Daniel and Keane, Jacqueline A and Parkhill, Julian},
journal={Bioinformatics},
volume={31},
number={22},
pages={3691--3693},
year={2015},
publisher={Oxford Univ Press}
}
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