{"id":"https://openalex.org/W7204964313","doi":"https://doi.org/10.5281/zenodo.22214559","title":"Code depository associated with: Three thousand five hundred years of sheeppox virus evolution inferred from archaeological and codicological genomes","display_name":"Code depository associated with: Three thousand five hundred years of sheeppox virus evolution inferred from archaeological and codicological genomes","publication_year":2026,"publication_date":"2026-08-31","ids":{"openalex":"https://openalex.org/W7204964313","doi":"https://doi.org/10.5281/zenodo.22214559"},"language":"en","primary_location":{"id":"doi:10.5281/zenodo.22214559","doi":"https://doi.org/10.5281/zenodo.22214559","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.22214559","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.5281/zenodo.22214559","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5104751597","display_name":"Louis L\u2019H\u00f4te","orcid":"https://orcid.org/0009-0003-0636-3961","observed_orcids":["https://orcid.org/0009-0003-0636-3961"]},"institutions":[{"id":"https://openalex.org/I205274468","display_name":"Trinity College Dublin","ror":"https://ror.org/02tyrky19","country_code":"IE","type":"education","lineage":["https://openalex.org/I205274468"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"L'H\u00f4te, Louis","raw_affiliation_strings":["Trinity College Dublin"],"raw_orcid":"https://orcid.org/0009-0003-0636-3961","affiliations":[{"raw_affiliation_string":"Trinity College Dublin","institution_ids":["https://openalex.org/I205274468"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080149544","display_name":"Luisa Sacrist\u00e1n","orcid":"https://orcid.org/0009-0008-0237-6681","observed_orcids":["https://orcid.org/0009-0008-0237-6681"]},"institutions":[{"id":"https://openalex.org/I100930933","display_name":"University College Dublin","ror":"https://ror.org/05m7pjf47","country_code":"IE","type":"education","lineage":["https://openalex.org/I100930933"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Sacrist\u00e1n, Luisa","raw_affiliation_strings":["UCD School of Agriculture and Food Science, University College Dublin, Belfield, Ireland","UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UCD School of Agriculture and Food Science, University College Dublin, Belfield, Ireland","institution_ids":["https://openalex.org/I100930933"]},{"raw_affiliation_string":"UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Ireland","institution_ids":["https://openalex.org/I100930933"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5135726546","display_name":"R\u00f3is\u00edn Ferguson","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1118541","display_name":"University of East Anglia","ror":"https://ror.org/026k5mg93","country_code":"GB","type":"education","lineage":["https://openalex.org/I1118541"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Ferguson, R\u00f3is\u00edn","raw_affiliation_strings":["School of Biological Sciences, University of East Anglia, Norwich, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of East Anglia, Norwich, UK","institution_ids":["https://openalex.org/I1118541"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5119752418","display_name":"Alex Siekmann","orcid":"https://orcid.org/0000-0002-9095-2181","observed_orcids":["https://orcid.org/0000-0002-9095-2181"]},"institutions":[{"id":"https://openalex.org/I100930933","display_name":"University College Dublin","ror":"https://ror.org/05m7pjf47","country_code":"IE","type":"education","lineage":["https://openalex.org/I100930933"]},{"id":"https://openalex.org/I205274468","display_name":"Trinity College Dublin","ror":"https://ror.org/02tyrky19","country_code":"IE","type":"education","lineage":["https://openalex.org/I205274468"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Siekmann, Alex","raw_affiliation_strings":["Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland","UCD School of Archaeology, University College Dublin, Belfield, Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland","institution_ids":["https://openalex.org/I205274468"]},{"raw_affiliation_string":"UCD School of Archaeology, University College Dublin, Belfield, Ireland","institution_ids":["https://openalex.org/I100930933"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5148925426","display_name":"Leland Rogers","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I153901656","display_name":"University of North Carolina Wilmington","ror":"https://ror.org/02t0qr014","country_code":"US","type":"education","lineage":["https://openalex.org/I153901656"]},{"id":"https://openalex.org/I32021983","display_name":"Christian-Albrechts-Universit\u00e4t zu Kiel","ror":"https://ror.org/04v76ef78","country_code":"DE","type":"education","lineage":["https://openalex.org/I32021983"]}],"countries":["DE","US"],"is_corresponding":false,"raw_author_name":"Rogers, Leland","raw_affiliation_strings":["Institute for Prehistoric and Protohistoric Archaeology, University of Kiel, Germany","Department of Anthropology, University of North Carolina, 601 S. College Road, Wilmington, NC, 28403, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Prehistoric and Protohistoric Archaeology, University of Kiel, Germany","institution_ids":["https://openalex.org/I32021983"]},{"raw_affiliation_string":"Department of Anthropology, University of North Carolina, 601 S. College Road, Wilmington, NC, 28403, USA","institution_ids":["https://openalex.org/I153901656"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068199769","display_name":"Barbara Richter","orcid":"https://orcid.org/0000-0002-9061-4676","observed_orcids":["https://orcid.org/0000-0002-9061-4676"]},"institutions":[{"id":"https://openalex.org/I150540706","display_name":"University of Veterinary Medicine Vienna","ror":"https://ror.org/01w6qp003","country_code":"AT","type":"education","lineage":["https://openalex.org/I150540706"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Richter, Barbara","raw_affiliation_strings":["Pathology, Center of Pathobiology, Department of Biological Sciences and Pathobiology, University of Veterinary Medicine, Vienna, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pathology, Center of Pathobiology, Department of Biological Sciences and Pathobiology, University of Veterinary Medicine, Vienna, Austria","institution_ids":["https://openalex.org/I150540706"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077389102","display_name":"Herbert Wei\u00dfenb\u00f6ck","orcid":"https://orcid.org/0000-0001-8197-6379","observed_orcids":["https://orcid.org/0000-0001-8197-6379"]},"institutions":[{"id":"https://openalex.org/I150540706","display_name":"University of Veterinary Medicine Vienna","ror":"https://ror.org/01w6qp003","country_code":"AT","type":"education","lineage":["https://openalex.org/I150540706"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Weissenb\u00f6ck, Herbert","raw_affiliation_strings":["Pathology, Center of Pathobiology, Department of Biological Sciences and Pathobiology, University of Veterinary Medicine, Vienna, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pathology, Center of Pathobiology, Department of Biological Sciences and Pathobiology, University of Veterinary Medicine, Vienna, Austria","institution_ids":["https://openalex.org/I150540706"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014454134","display_name":"Jenny Lorke","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210124929","display_name":"Helmholtz Centre for Infection Research","ror":"https://ror.org/03d0p2685","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I4210124929"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Lorke, Jenny","raw_affiliation_strings":["Helmholtz Institute for One Health, Helmholtz Centre for Infection Research, Greifswald, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Helmholtz Institute for One Health, Helmholtz Centre for Infection Research, Greifswald, Germany","institution_ids":["https://openalex.org/I4210124929"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126670563","display_name":"Lara Artemis","orcid":"https://orcid.org/0009-0000-7595-8668","observed_orcids":["https://orcid.org/0009-0000-7595-8668"]},"institutions":[{"id":"https://openalex.org/I107603542","display_name":"Courtauld Institute of Art","ror":"https://ror.org/052411t69","country_code":"GB","type":"education","lineage":["https://openalex.org/I107603542","https://openalex.org/I124357947"]},{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Artemis, Lara","raw_affiliation_strings":["Courtauld Institute of Art, University of London, London, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Courtauld Institute of Art, University of London, London, UK","institution_ids":["https://openalex.org/I107603542","https://openalex.org/I124357947"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046883545","display_name":"\u00c9lodie L\u00e9v\u00eaque","orcid":"https://orcid.org/0000-0001-8420-792X","observed_orcids":["https://orcid.org/0000-0001-8420-792X"]},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210156313","display_name":"Institut de Recherche et d'Histoire des Textes","ror":"https://ror.org/05evznf71","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210150854","https://openalex.org/I4210156313"]},{"id":"https://openalex.org/I51101395","display_name":"Universit\u00e9 Paris 1 Panth\u00e9on-Sorbonne","ror":"https://ror.org/002t25c44","country_code":"FR","type":"education","lineage":["https://openalex.org/I51101395"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"L\u00e9v\u00eaque, \u00c9lodie","raw_affiliation_strings":["Universit\u00e9 Paris 1 Panth\u00e9on-Sorbonne, France","Institut de Recherche et d'Histoire des Textes, CNRS, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris 1 Panth\u00e9on-Sorbonne, France","institution_ids":["https://openalex.org/I51101395"]},{"raw_affiliation_string":"Institut de Recherche et d'Histoire des Textes, CNRS, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210156313"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023260262","display_name":"Richard R. Hark","orcid":"https://orcid.org/0000-0001-5975-5529","observed_orcids":["https://orcid.org/0000-0001-5975-5529"]},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hark, Richard","raw_affiliation_strings":["Institute for the Preservation of Cultural Heritage, Yale University, West Haven, Connecticut, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for the Preservation of Cultural Heritage, Yale University, West Haven, Connecticut, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068470071","display_name":"Patricia Engel","orcid":"https://orcid.org/0000-0002-5413-3728","observed_orcids":["https://orcid.org/0000-0002-5413-3728"]},"institutions":[{"id":"https://openalex.org/I132976966","display_name":"Universit\u00e4t f\u00fcr Weiterbildung Krems","ror":"https://ror.org/03ef4a036","country_code":"AT","type":"education","lineage":["https://openalex.org/I132976966"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Engel, Patricia","raw_affiliation_strings":["University for Continuing Education Krems, Dr. Karl Dorrekstr. 30, 3500 Krems, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University for Continuing Education Krems, Dr. Karl Dorrekstr. 30, 3500 Krems, Austria","institution_ids":["https://openalex.org/I132976966"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126715409","display_name":"Mary Teresa Josephine Webber","orcid":"https://orcid.org/0009-0009-3362-5123","observed_orcids":["https://orcid.org/0009-0009-3362-5123"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Webber, Mary Teresa Josephine","raw_affiliation_strings":["Faculty of History, University of Cambridge, Cambridge UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of History, University of Cambridge, Cambridge UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5139330056","display_name":"Madison Bennett","orcid":"https://orcid.org/0009-0008-4522-504X","observed_orcids":["https://orcid.org/0009-0008-4522-504X"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Bennett, Madison","raw_affiliation_strings":["Department of Archaeology, University of Cambridge, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Archaeology, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126714094","display_name":"Kristine Rose-Beers","orcid":"https://orcid.org/0000-0002-7216-0869","observed_orcids":["https://orcid.org/0000-0002-7216-0869"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Rose-Beers, Kristine","raw_affiliation_strings":["Conservation Department, University of Cambridge Libraries and Archives, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Conservation Department, University of Cambridge Libraries and Archives, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126743077","display_name":"Emma Nichols","orcid":"https://orcid.org/0000-0001-7982-6953","observed_orcids":["https://orcid.org/0000-0001-7982-6953"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nichols, Emma","raw_affiliation_strings":["Conservation Department, University of Cambridge Libraries and Archives, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Conservation Department, University of Cambridge Libraries and Archives, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040926700","display_name":"Marta Mu\u00f1oz-Alegre","orcid":"https://orcid.org/0000-0003-4775-286X","observed_orcids":["https://orcid.org/0000-0003-4775-286X"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Munoz Alegre, Marta","raw_affiliation_strings":["McDonald Institute for Archaeological Research, University of Cambridge, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"McDonald Institute for Archaeological Research, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027707808","display_name":"Max Rams\u00f8e","orcid":"https://orcid.org/0000-0002-7978-4252","observed_orcids":["https://orcid.org/0000-0002-7978-4252"]},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Rams\u00f8e, Max","raw_affiliation_strings":["GeoGenetics, Globe Institute, University of Copenhagen"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"GeoGenetics, Globe Institute, University of Copenhagen","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003416349","display_name":"Sarah Fiddyment","orcid":"https://orcid.org/0000-0002-8991-2318","observed_orcids":["https://orcid.org/0000-0002-8991-2318"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I52099693","display_name":"University of York","ror":"https://ror.org/04m01e293","country_code":"GB","type":"education","lineage":["https://openalex.org/I52099693"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Fiddyment, Sarah","raw_affiliation_strings":["McDonald Institute for Archaeological Research, University of Cambridge, Cambridge, UK","BioArCh, Department of Archaeology, University of York, York, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"McDonald Institute for Archaeological Research, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"BioArCh, Department of Archaeology, University of York, York, UK","institution_ids":["https://openalex.org/I52099693"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042411589","display_name":"Laura Cristina Vi\u00f1as-Caron","orcid":"https://orcid.org/0000-0002-3577-0799","observed_orcids":["https://orcid.org/0000-0002-3577-0799"]},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Vi\u00f1as-Caron, Laura C.","raw_affiliation_strings":["Globe Institute, University of Copenhagen, Copenhagen, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Globe Institute, University of Copenhagen, Copenhagen, Denmark","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060821494","display_name":"Dmitri V. Papin","orcid":"https://orcid.org/0000-0002-2010-9092","observed_orcids":["https://orcid.org/0000-0002-2010-9092"]},"institutions":[{"id":"https://openalex.org/I163137577","display_name":"Altai State University","ror":"https://ror.org/04m4wwh75","country_code":"RU","type":"education","lineage":["https://openalex.org/I163137577"]},{"id":"https://openalex.org/I4210127387","display_name":"Siberian Branch of the Russian Academy of Sciences","ror":"https://ror.org/02frkq021","country_code":"RU","type":"government","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210127387"]},{"id":"https://openalex.org/I4210164949","display_name":"Institute of Archaeology and Ethnography","ror":"https://ror.org/05m3tag45","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210120960","https://openalex.org/I4210127387","https://openalex.org/I4210164949"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Papin, Dimitry V.","raw_affiliation_strings":["Altai State University, Barnaul, Russia","Institute of Archaeology and Ethnography, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Altai State University, Barnaul, Russia","institution_ids":["https://openalex.org/I163137577"]},{"raw_affiliation_string":"Institute of Archaeology and Ethnography, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia","institution_ids":["https://openalex.org/I4210127387","https://openalex.org/I4210164949"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104751598","display_name":"Ian Light-Maka","orcid":"https://orcid.org/0000-0001-6720-3732","observed_orcids":["https://orcid.org/0000-0001-6720-3732"]},"institutions":[{"id":"https://openalex.org/I4210087223","display_name":"Max Planck Institute for Infection Biology","ror":"https://ror.org/0046gcs23","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210087223"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Light-Maka, Ian C.","raw_affiliation_strings":["Max Planck Institute for Infection Biology, Evolutionary Pathogenomics, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Max Planck Institute for Infection Biology, Evolutionary Pathogenomics, Berlin, Germany","institution_ids":["https://openalex.org/I4210087223"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035371309","display_name":"Felix M. Key","orcid":"https://orcid.org/0000-0003-2812-6636","observed_orcids":["https://orcid.org/0000-0003-2812-6636"]},"institutions":[{"id":"https://openalex.org/I4210087223","display_name":"Max Planck Institute for Infection Biology","ror":"https://ror.org/0046gcs23","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210087223"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Key, Felix M.","raw_affiliation_strings":["Max Planck Institute for Infection Biology, Evolutionary Pathogenomics, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Max Planck Institute for Infection Biology, Evolutionary Pathogenomics, Berlin, Germany","institution_ids":["https://openalex.org/I4210087223"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069363420","display_name":"Jonas Dutra Albarnaz","orcid":"https://orcid.org/0000-0002-8792-813X","observed_orcids":["https://orcid.org/0000-0002-8792-813X"]},"institutions":[{"id":"https://openalex.org/I1287548271","display_name":"The Pirbright Institute","ror":"https://ror.org/04xv01a59","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1287548271","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Albarnaz, Jonas","raw_affiliation_strings":["Pirbright Institute, Surrey, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pirbright Institute, Surrey, UK","institution_ids":["https://openalex.org/I1287548271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088904620","display_name":"Tim Downing","orcid":"https://orcid.org/0000-0002-8385-6730","observed_orcids":["https://orcid.org/0000-0002-8385-6730"]},"institutions":[{"id":"https://openalex.org/I1287548271","display_name":"The Pirbright Institute","ror":"https://ror.org/04xv01a59","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1287548271","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Downing, Tim","raw_affiliation_strings":["Pirbright Institute, Surrey, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pirbright Institute, Surrey, UK","institution_ids":["https://openalex.org/I1287548271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068473957","display_name":"Jonathan E. Pekar","orcid":"https://orcid.org/0000-0003-0977-2886","observed_orcids":["https://orcid.org/0000-0003-0977-2886"]},"institutions":[{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Pekar, Jonathan","raw_affiliation_strings":["Institute of Ecology and Evolution, University of Edinburgh, Edinburgh, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Ecology and Evolution, University of Edinburgh, Edinburgh, UK","institution_ids":["https://openalex.org/I98677209"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039280845","display_name":"Philippe Lemey","orcid":"https://orcid.org/0000-0003-2826-5353","observed_orcids":["https://orcid.org/0000-0003-2826-5353"]},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Lemey, Philippe","raw_affiliation_strings":["Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I24156275","https://openalex.org/I99464096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5129753151","display_name":"Daniel Bradley","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I205274468","display_name":"Trinity College Dublin","ror":"https://ror.org/02tyrky19","country_code":"IE","type":"education","lineage":["https://openalex.org/I205274468"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Bradley, Daniel","raw_affiliation_strings":["Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland","institution_ids":["https://openalex.org/I205274468"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002227166","display_name":"Ji\u0159\u00ed Vnou\u010dek","orcid":"https://orcid.org/0000-0002-1576-974X","observed_orcids":["https://orcid.org/0000-0002-1576-974X"]},"institutions":[{"id":"https://openalex.org/I2802466791","display_name":"Royal Danish Library","ror":"https://ror.org/03vvy0v27","country_code":"DK","type":"archive","lineage":["https://openalex.org/I2802466791"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Vnou\u010dek, Ji\u0159\u00ed","raw_affiliation_strings":["Preservation department, Royal Danish Library, Copenhagen, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Preservation department, Royal Danish Library, Copenhagen, Denmark","institution_ids":["https://openalex.org/I2802466791"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028170941","display_name":"Cheryl A. Makarewicz","orcid":"https://orcid.org/0000-0002-1649-336X","observed_orcids":["https://orcid.org/0000-0002-1649-336X"]},"institutions":[{"id":"https://openalex.org/I32021983","display_name":"Christian-Albrechts-Universit\u00e4t zu Kiel","ror":"https://ror.org/04v76ef78","country_code":"DE","type":"education","lineage":["https://openalex.org/I32021983"]},{"id":"https://openalex.org/I91203450","display_name":"University of Haifa","ror":"https://ror.org/02f009v59","country_code":"IL","type":"education","lineage":["https://openalex.org/I91203450"]}],"countries":["DE","IL"],"is_corresponding":false,"raw_author_name":"Makarewicz, Cheryl A.","raw_affiliation_strings":["Institute for Prehistoric and Protohistoric Archaeology, University of Kiel, Germany","Department of Archaeological Sciences, School of Archaeology and Maritime Civilizations, University of Haifa, Haifa, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Prehistoric and Protohistoric Archaeology, University of Kiel, Germany","institution_ids":["https://openalex.org/I32021983"]},{"raw_affiliation_string":"Department of Archaeological Sciences, School of Archaeology and Maritime Civilizations, University of Haifa, Haifa, Israel","institution_ids":["https://openalex.org/I91203450"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057138007","display_name":"Joanna Story","orcid":"https://orcid.org/0000-0002-1022-9381","observed_orcids":["https://orcid.org/0000-0002-1022-9381"]},"institutions":[{"id":"https://openalex.org/I153648349","display_name":"University of Leicester","ror":"https://ror.org/04h699437","country_code":"GB","type":"education","lineage":["https://openalex.org/I153648349"]},{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Story, Joanna","raw_affiliation_strings":["School of History, Politics and International Relations, University of Leicester","Bodleian Libraries, University of Oxford"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of History, Politics and International Relations, University of Leicester","institution_ids":["https://openalex.org/I153648349"]},{"raw_affiliation_string":"Bodleian Libraries, University of Oxford","institution_ids":["https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007270655","display_name":"Matthew J. Collins","orcid":"https://orcid.org/0000-0003-4226-5501","observed_orcids":["https://orcid.org/0000-0003-4226-5501"]},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["DK","GB"],"is_corresponding":false,"raw_author_name":"Collins, Matthew","raw_affiliation_strings":["Globe Institute, Faculty of Health and Medical Sciences, Copenhagen, Denmark","McDonald Institute for Archaeological Research, University of Cambridge, West Tower, Downing Street, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Globe Institute, Faculty of Health and Medical Sciences, Copenhagen, Denmark","institution_ids":["https://openalex.org/I124055696"]},{"raw_affiliation_string":"McDonald Institute for Archaeological Research, University of Cambridge, West Tower, Downing Street, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050686426","display_name":"Matthew D. Teasdale","orcid":"https://orcid.org/0000-0002-7376-9975","observed_orcids":["https://orcid.org/0000-0002-7376-9975"]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I52099693","display_name":"University of York","ror":"https://ror.org/04m01e293","country_code":"GB","type":"education","lineage":["https://openalex.org/I52099693"]},{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Teasdale, Matthew D.","raw_affiliation_strings":["McDonald Institute for Archaeological Research, University of Cambridge, Cambridge, UK","BioArCh, Department of Archaeology, University of York, York, UK","Bioinformatics Support Unit, Faculty of Medical Sciences, Newcastle University, Newcastle Upon Tyne, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"McDonald Institute for Archaeological Research, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"BioArCh, Department of Archaeology, University of York, York, UK","institution_ids":["https://openalex.org/I52099693"]},{"raw_affiliation_string":"Bioinformatics Support Unit, Faculty of Medical Sciences, Newcastle University, Newcastle Upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058369236","display_name":"Annelise Binois\u2010Roman","orcid":"https://orcid.org/0000-0002-7704-3100","observed_orcids":["https://orcid.org/0000-0002-7704-3100"]},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210144585","display_name":"Arch\u00e9ologies et Sciences de l\u2019Antiquit\u00e9","ror":"https://ror.org/04wz9m339","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I2802818602","https://openalex.org/I40434647","https://openalex.org/I4210102700","https://openalex.org/I4210144585","https://openalex.org/I4210150854","https://openalex.org/I51101395"]},{"id":"https://openalex.org/I4387155021","display_name":"Maison des Sciences de l'Homme Mondes","ror":"https://ror.org/00wx1mx58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I40434647","https://openalex.org/I4387155021","https://openalex.org/I51101395"]},{"id":"https://openalex.org/I51101395","display_name":"Universit\u00e9 Paris 1 Panth\u00e9on-Sorbonne","ror":"https://ror.org/002t25c44","country_code":"FR","type":"education","lineage":["https://openalex.org/I51101395"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Binois-Roman, Annelise","raw_affiliation_strings":["Universit\u00e9 Paris 1 Panth\u00e9on-Sorbonne, France","CNRS UMR 7041 ArScAn, Nanterre, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris 1 Panth\u00e9on-Sorbonne, France","institution_ids":["https://openalex.org/I51101395"]},{"raw_affiliation_string":"CNRS UMR 7041 ArScAn, Nanterre, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210144585","https://openalex.org/I4387155021"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054868994","display_name":"S\u00e9bastien Calvignac\u2010Spencer","orcid":"https://orcid.org/0000-0003-4834-0509","observed_orcids":["https://orcid.org/0000-0003-4834-0509"]},"institutions":[{"id":"https://openalex.org/I36522303","display_name":"Universit\u00e4t Greifswald","ror":"https://ror.org/00r1edq15","country_code":"DE","type":"education","lineage":["https://openalex.org/I36522303"]},{"id":"https://openalex.org/I4210124929","display_name":"Helmholtz Centre for Infection Research","ror":"https://ror.org/03d0p2685","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I4210124929"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Calvignac-Spencer, S\u00e9bastien","raw_affiliation_strings":["Helmholtz Institute for One Health, Helmholtz Centre for Infection Research, Greifswald, Germany","Faculty of Mathematics and Natural Sciences, University of Greifswald, Greifswald, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Helmholtz Institute for One Health, Helmholtz Centre for Infection Research, Greifswald, Germany","institution_ids":["https://openalex.org/I4210124929"]},{"raw_affiliation_string":"Faculty of Mathematics and Natural Sciences, University of Greifswald, Greifswald, Germany","institution_ids":["https://openalex.org/I36522303"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071718410","display_name":"Kevin G. Daly","orcid":"https://orcid.org/0000-0002-5579-6144","observed_orcids":["https://orcid.org/0000-0002-5579-6144"]},"institutions":[{"id":"https://openalex.org/I100930933","display_name":"University College Dublin","ror":"https://ror.org/05m7pjf47","country_code":"IE","type":"education","lineage":["https://openalex.org/I100930933"]},{"id":"https://openalex.org/I205274468","display_name":"Trinity College Dublin","ror":"https://ror.org/02tyrky19","country_code":"IE","type":"education","lineage":["https://openalex.org/I205274468"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Daly, Kevin G.","raw_affiliation_strings":["UCD School of Agriculture and Food Science, University College Dublin, Belfield, Ireland","UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Ireland","Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UCD School of Agriculture and Food Science, University College Dublin, Belfield, Ireland","institution_ids":["https://openalex.org/I100930933"]},{"raw_affiliation_string":"UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Ireland","institution_ids":["https://openalex.org/I100930933"]},{"raw_affiliation_string":"Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland","institution_ids":["https://openalex.org/I205274468"]}]}],"institutions":[],"countries_distinct_count":10,"institutions_distinct_count":33,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.53593527,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11767","display_name":"Poxvirus research and outbreaks","score":0.5435000061988831,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11767","display_name":"Poxvirus research and outbreaks","score":0.5435000061988831,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.3003000020980835,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11560","display_name":"Animal Disease Management and Epidemiology","score":0.0215000007301569,"subfield":{"id":"https://openalex.org/subfields/1103","display_name":"Animal Science and Zoology"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/sheep-pox-virus","display_name":"sheep pox virus","score":0.9639999866485596},{"id":"https://openalex.org/keywords/capripoxvirus","display_name":"Capripoxvirus","score":0.9599999785423279},{"id":"https://openalex.org/keywords/ancient-dna","display_name":"ancient DNA","score":0.5960000157356262},{"id":"https://openalex.org/keywords/viral-evolution","display_name":"viral evolution","score":0.625},{"id":"https://openalex.org/keywords/phylogenomics","display_name":"phylogenomics","score":0.6380000114440918},{"id":"https://openalex.org/keywords/mitochondrial-genome","display_name":"mitochondrial genome","score":0.781000018119812},{"id":"https://openalex.org/keywords/gene-inactivation","display_name":"gene inactivation","score":0.6259999871253967},{"id":"https://openalex.org/keywords/recombination","display_name":"recombination","score":0.8169999718666077},{"id":"https://openalex.org/keywords/phylogenetic-dating","display_name":"phylogenetic dating","score":0.7820000052452087},{"id":"https://openalex.org/keywords/sheep-diseases","display_name":"sheep diseases","score":0.3140000104904175}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7161999940872192},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5932999849319458},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5485000014305115},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4830000102519989},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.47510001063346863},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.47360000014305115},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.4004000127315521},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.3926999866962433},{"id":"https://openalex.org/C178300618","wikidata":"https://www.wikidata.org/wiki/Q1898509","display_name":"Extant taxon","level":2,"score":0.3806000053882599},{"id":"https://openalex.org/C2781078984","wikidata":"https://www.wikidata.org/wiki/Q107205","display_name":"Mega-","level":2,"score":0.3749000132083893},{"id":"https://openalex.org/C2777002779","wikidata":"https://www.wikidata.org/wiki/Q42478","display_name":"Perl","level":2,"score":0.3528999984264374},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.3431999981403351},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.32760000228881836},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.32269999384880066},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.32120001316070557},{"id":"https://openalex.org/C61053724","wikidata":"https://www.wikidata.org/wiki/Q1154615","display_name":"Sequence analysis","level":3,"score":0.31349998712539673},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2890999913215637},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.28850001096725464},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.28850001096725464},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2791000008583069},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.267300009727478},{"id":"https://openalex.org/C24586158","wikidata":"https://www.wikidata.org/wiki/Q27075","display_name":"Mitochondrial DNA","level":3,"score":0.2671000063419342},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.2635999917984009},{"id":"https://openalex.org/C70343354","wikidata":"https://www.wikidata.org/wiki/Q3381973","display_name":"Phylogenomics","level":5,"score":0.25999999046325684},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.2563999891281128},{"id":"https://openalex.org/C2554327","wikidata":"https://www.wikidata.org/wiki/Q2698599","display_name":"Coalescent theory","level":4,"score":0.2551000118255615}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.5281/zenodo.22214559","doi":"https://doi.org/10.5281/zenodo.22214559","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.22214559","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},{"id":"doi:10.5281/zenodo.22214560","doi":"https://doi.org/10.5281/zenodo.22214560","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.22214560","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.5281/zenodo.22214559","doi":"https://doi.org/10.5281/zenodo.22214559","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.22214559","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W7131291560","https://openalex.org/W3216908408","https://openalex.org/W7147601497","https://openalex.org/W4200303102","https://openalex.org/W6968155256","https://openalex.org/W4389052020","https://openalex.org/W6912310725","https://openalex.org/W6939332782","https://openalex.org/W6968730540","https://openalex.org/W2945618225"],"abstract_inverted_index":{"Sheeppox_aDNA":[0],"Repository":[1,94],"containing":[2],"the":[3,50,91,141,217,264],"analysis":[4,48,139,177],"pipelines":[5],"and":[6,19,43,58,68,122,171],"scripts":[7,110,159],"used":[8,33,262,276],"in":[9,186,263],"3,500":[10],"years":[11],"of":[12,36,49,90,140,184,194,242,254],"sheeppox":[13],"virus":[14],"evolution":[15],"inferred":[16],"from":[17],"archaeological":[18],"codicological":[20],"genomes.":[21],"Article:":[22],"Link":[23],"to":[24,111,126,130,200,220,229],"article":[25],"\ud83e\uddec":[26],"Overview":[27],"This":[28],"repository":[29],"gathers":[30],"all":[31],"code":[32],"for:":[34],"Screening":[35],"sequencing":[37],"data":[38],"for":[39,98,114,118,150,160,174,268],"Capripoxvirus":[40],"Mitochondrial":[41],"analyses":[42,62,70],"competitive":[44,132],"mapping":[45,121],"SPPV_ML":[46],"Phylogenetic":[47,74],"aSPPV":[51,142],"dataset":[52,143],"with":[53,76,144,246],"Pathphynder":[54],"placement":[55,157],"Metagenomic":[56],"assembly":[57],"scaffolding":[59],"Gene":[60],"integrity":[61,176],"across":[63,178],"genomes":[64,152,185],"Pairwise":[65,208],"distance":[66],"calculations":[67],"recombination-aware":[69],"Inactivated":[71],"genes":[72,244],"profiling":[73],"dating":[75],"BEAST":[77,258,278],"Each":[78],"directory":[79],"is":[80],"a":[81,236],"self-contained":[82],"module":[83],"or":[84],"pipeline":[85,97],"focused":[86],"on":[87,205],"one":[88],"part":[89],"analysis.":[92],"\ud83d\udcc1":[93],"Structure":[95],"Screening/Snakemake":[96],"Capripox":[99,115,206],"screening.Includes:":[100],"Adapter":[101],"removal":[102,105],"Host":[103],"read":[104,120,164],"KrakenUniq-based":[106],"taxonomic":[107],"screening":[108],"Post-pipeline":[109],"compute":[112,201,230],"E-values":[113],"viruses.":[116],"Mitochondrial/Scripts":[117],"mitochondrial":[119,127],"downstream":[123],"processing.Includes:":[124],"Mapping":[125],"references":[128],"Scripts":[129],"split":[131],"BAMs":[133],"into":[134],"per-species":[135],"BAM":[136],"files.":[137],"SPPV_ML/Phylogenetic":[138],"PathPhynder":[145,155],"placement.Includes:":[146],"Multiple":[147],"sequence":[148,240],"alignments":[149,241],"SPPV":[151],"ML":[153],"trees":[154],"outputs":[156],"Meta_assembly/Post-processing":[158],"metagenomic":[161],"assemblies.Ensures":[162],"that":[163],"pairs":[165],"are":[166],"preserved":[167],"before":[168],"running":[169],"SPAdes":[170],"RagTag.":[172],"Gene_integrity/Pipeline":[173],"gene":[175,255],"multiple":[179],"genomes.Works":[180],"on:":[181],"A":[182,189],"set":[183],"FASTA":[187],"format":[188],"reference":[190],"GFF":[191],"annotationProduces":[192],"summaries":[193],"intact":[195],"vs.":[196],"disrupted":[197],"genes.":[198],"Pairwise_distance/Scripts":[199],"pairwise":[202],"genetic":[203],"distances":[204,231],"alignments.Features:":[207],"similarity":[209],"across:":[210],"The":[211],"full":[212],"genome":[213,218],"Sliding":[214],"windows":[215],"along":[216],"Option":[219],"exclude":[221],"recombinant":[222],"regions":[223],"via":[224],"an":[225],"input":[226,260],"file":[227],"Ability":[228],"between":[232],"species":[233],"groups":[234],"using":[235],"metadata":[237],"file.":[238],"Inactivated_genes_analyses/Multiple":[239],"inactivated":[243],"generated":[245],"MACSE.Scripts":[247],"to:":[248],"Analyze":[249],"inactivation":[250],"profiles":[251],"Summarize":[252],"patterns":[253],"disruption.":[256],"BEAST/All":[257],"XML":[259],"files":[261],"paper.Includes:":[265],"Configured":[266],"XMLs":[267],"different":[269],"clock":[270],"/":[271],"tree":[272],"models":[273],"Aligned":[274],"datasets":[275],"as":[277],"input.":[279]},"counts_by_year":[],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2026-09-02T00:00:00"}
