Samuel Aroney

@article{aroney2025bin,
  title = {Bin Chicken: targeted metagenomic coassembly for the efficient recovery of novel genomes},
  author = {Aroney, Samuel T. N. and Newell, Rhys J. P. and Tyson, Gene W. and Woodcroft, Ben J.},
  journal = {Nature Methods},
  volume = {22},
  number = {12},
  pages = {2516–2524},
  year = {2025},
  publisher = {Springer Science and Business Media LLC},
  doi = {10.1038/s41592-025-02901-1}
}

@article{woodcroft2025comprehensive,
  title = {Comprehensive taxonomic identification of microbial species in metagenomic data using SingleM and Sandpiper},
  author = {Woodcroft, Ben J. and Aroney, Samuel T. N. and Zhao, Rossen and Cunningham, Mitchell and Mitchell, Joshua A. M. and Nurdiansyah, Rizky and Blackall, Linda and Tyson, Gene W.},
  journal = {Nature Biotechnology},
  volume = {44},
  number = {6},
  pages = {948–953},
  year = {2025},
  publisher = {Springer Science and Business Media LLC},
  doi = {10.1038/s41587-025-02738-1}
}

@article{aroney2025coverm,
  title = {CoverM: read alignment statistics for metagenomics},
  author = {Aroney, Samuel T N and Newell, Rhys J P and Nissen, Jakob N and Camargo, Antonio Pedro and Tyson, Gene W and Woodcroft, Ben J},
  journal = {Bioinformatics},
  volume = {41},
  number = {4},
  year = {2025},
  publisher = {Oxford University Press (OUP)},
  doi = {10.1093/bioinformatics/btaf147}
}

@article{singleton2025microflora,
  title = {The Microflora Danica atlas of Danish environmental microbiomes},
  author = {Singleton, C. M. and Jensen, T. B. N. and Delogu, F. and Knudsen, K. S. and Sørensen, E. A. and Jørgensen, V. R. and Karst, S. M. and Yang, Y. and Sereika, M. and Petriglieri, F. and Knutsson, S. and Dall, S. M. and Kirkegaard, R. H. and Kristensen, J. M. and Overgaard, C. K. and Woodcroft, B. J. and Speth, D. R. and Aroney, S. T. N. and Thomsen, Henning C. and Christensen, Bent T. and de Jonge, Lis W. and Danielsen, Anne-Cathrine S. and Hermansen, Cecilie and Greve, Mogens H. and Ejrnæs, Rasmus and Davidson, Thomas A. and Normand, Signe and Treier, Urs A. and Madsen, Bjarke and Schramm, Andreas and Marshall, Ian P. G. and Dam, Ann-Sofie and Kjeldsen, Kasper U. and Finster, Kai and Thomsen, Philip F. and Sigsgaard, Eva E. and Klepke, Martin J. and Vestergård, Marie and Aude, Erik and Thomsen, Lene and Lemming, Camilla and Hørfarter, Rita and Jensen, Marlene M. and Frøslev, Tobias G. and Gram, Lone and Svendsen, Peter B. and Schostag, Morten Dencker and Kjellerup, Sanne and Skovhus, Torben L. and Søborg, Ditte A. and Reitzel, Kasper and Pedersen, Jørgen F. and Giguere, Andrew and Pedersen, Inge S. and Sønderkær, Mads and Vollertsen, Jes and Liu, Fan and Roslev, Peter and Iversen, Niels and Nielsen, Kåre L. and de Jonge, Nadieh and Bruhn, Dan and Nielsen, Jeppe L. and Kristensen, Torsten N. and Jiang, Chenjing and Nierychlo, Marta A. and Dottorini, Giulia and Wagner, M. and Dueholm, M. K. D. and Nielsen, P. H. and Albertsen, M.},
  journal = {Nature},
  volume = {649},
  number = {8098},
  pages = {971–981},
  year = {2025},
  publisher = {Springer Science and Business Media LLC},
  doi = {10.1038/s41586-025-09794-2}
}

@article{freirezapata2024microbiome,
  title = {Microbiome–metabolite linkages drive greenhouse gas dynamics over a permafrost thaw gradient},
  author = {Freire-Zapata, Viviana and Holland-Moritz, Hannah and Cronin, Dylan R. and Aroney, Sam and Smith, Derek A. and Wilson, Rachel M. and Ernakovich, Jessica G. and Woodcroft, Ben J. and Bagby, Sarah C. and Hodgkins, Suzanne B. and Mondav, Rhiannon and E. Cross, Jennifer and Fahnestock, Maria Florencia and Ferriere, Regis and Ibba, Michael and Saleska, Scott R. and Varner, Ruth K. and Zayed, Ahmed A. and Rich, Virginia I. and Sullivan, Matthew B. and Stegen, James C. and Tfaily, Malak M.},
  journal = {Nature Microbiology},
  volume = {9},
  number = {11},
  pages = {2892–2908},
  year = {2024},
  publisher = {Springer Science and Business Media LLC},
  doi = {10.1038/s41564-024-01800-z}
}