{"id":"https://openalex.org/W3036934263","doi":"https://doi.org/10.1186/s12859-020-03585-4","title":"ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data","display_name":"ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data","publication_year":2020,"publication_date":"2020-06-22","ids":{"openalex":"https://openalex.org/W3036934263","doi":"https://doi.org/10.1186/s12859-020-03585-4","mag":"3036934263","pmid":"https://pubmed.ncbi.nlm.nih.gov/32571209"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-03585-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03585-4","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03585-4","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03585-4","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042814828","display_name":"Silas Kieser","orcid":"https://orcid.org/0000-0002-5935-9734"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Silas Kieser","raw_affiliation_strings":["Department of Cell Physiology and Metabolism, Faculty of Medicine, Centre Medical Universitaire, 1206, Geneva, Switzerland","Swiss Institute of Bioinformatics, Geneva, Switzerland"],"affiliations":[{"raw_affiliation_string":"Department of Cell Physiology and Metabolism, Faculty of Medicine, Centre Medical Universitaire, 1206, Geneva, Switzerland","institution_ids":[]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Geneva, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102838242","display_name":"Joseph Brown","orcid":"https://orcid.org/0000-0002-7678-6105"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I223532165","display_name":"University of Utah","ror":"https://ror.org/03r0ha626","country_code":"US","type":"education","lineage":["https://openalex.org/I223532165"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joseph Brown","raw_affiliation_strings":["Current address: Department of Human Genetics, University of Utah, 15 S 2030 E, Salt Lake City, UT, 84112, USA","Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA"],"affiliations":[{"raw_affiliation_string":"Current address: Department of Human Genetics, University of Utah, 15 S 2030 E, Salt Lake City, UT, 84112, USA","institution_ids":["https://openalex.org/I223532165"]},{"raw_affiliation_string":"Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029893038","display_name":"Evgeny M. Zdobnov","orcid":"https://orcid.org/0000-0002-5178-1498"},"institutions":[{"id":"https://openalex.org/I114457229","display_name":"University of Geneva","ror":"https://ror.org/01swzsf04","country_code":"CH","type":"education","lineage":["https://openalex.org/I114457229"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Evgeny M. Zdobnov","raw_affiliation_strings":["Department of Genetic Medicine and Development, University of Geneva, 1206, Geneva, Switzerland","Institute of Genetics and Genomics in Geneva (iGE3), University of Geneva, 1206, Geneva, Switzerland","Swiss Institute of Bioinformatics, Geneva, Switzerland"],"affiliations":[{"raw_affiliation_string":"Department of Genetic Medicine and Development, University of Geneva, 1206, Geneva, Switzerland","institution_ids":["https://openalex.org/I114457229"]},{"raw_affiliation_string":"Institute of Genetics and Genomics in Geneva (iGE3), University of Geneva, 1206, Geneva, Switzerland","institution_ids":["https://openalex.org/I114457229"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Geneva, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007570063","display_name":"Mirko Trajkovski","orcid":"https://orcid.org/0000-0002-3152-9551"},"institutions":[{"id":"https://openalex.org/I114457229","display_name":"University of Geneva","ror":"https://ror.org/01swzsf04","country_code":"CH","type":"education","lineage":["https://openalex.org/I114457229"]},{"id":"https://openalex.org/I4210126178","display_name":"Polyclinic Medical University","ror":"https://ror.org/02899vv07","country_code":"CH","type":"healthcare","lineage":["https://openalex.org/I4210126178"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Mirko Trajkovski","raw_affiliation_strings":["Department of Cell Physiology and Metabolism, Faculty of Medicine, Centre Medical Universitaire, 1206, Geneva, Switzerland","Diabetes Center, Faculty of Medicine, Centre Medical Universitaire, 1206, Geneva, Switzerland","Institute of Genetics and Genomics in Geneva (iGE3), University of Geneva, 1206, Geneva, Switzerland"],"affiliations":[{"raw_affiliation_string":"Department of Cell Physiology and Metabolism, Faculty of Medicine, Centre Medical Universitaire, 1206, Geneva, Switzerland","institution_ids":[]},{"raw_affiliation_string":"Diabetes Center, Faculty of Medicine, Centre Medical Universitaire, 1206, Geneva, Switzerland","institution_ids":["https://openalex.org/I4210126178"]},{"raw_affiliation_string":"Institute of Genetics and Genomics in Geneva (iGE3), University of Geneva, 1206, Geneva, Switzerland","institution_ids":["https://openalex.org/I114457229"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5055701440","display_name":"Lee Ann McCue","orcid":"https://orcid.org/0000-0003-4456-517X"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lee Ann McCue","raw_affiliation_strings":["Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. leeann.mccue@pnnl.gov","Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA"],"affiliations":[{"raw_affiliation_string":"Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. leeann.mccue@pnnl.gov","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA","institution_ids":["https://openalex.org/I142606810"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5042814828"],"corresponding_institution_ids":["https://openalex.org/I12708293"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":7.8579,"has_fulltext":true,"cited_by_count":196,"citation_normalized_percentile":{"value":0.9836363,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"21","issue":"1","first_page":"257","last_page":"257"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9969000220298767,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.8717829585075378},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7894325256347656},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.6658643484115601},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6407001614570618},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6099360585212708},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4496607184410095},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4479927718639374},{"id":"https://openalex.org/keywords/modular-design","display_name":"Modular design","score":0.44278663396835327},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.42695358395576477},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.41895806789398193},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33939987421035767},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3355483412742615},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1611185371875763},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1254781186580658},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12031924724578857},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11826449632644653}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8717829585075378},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7894325256347656},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.6658643484115601},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6407001614570618},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6099360585212708},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4496607184410095},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4479927718639374},{"id":"https://openalex.org/C101468663","wikidata":"https://www.wikidata.org/wiki/Q1620158","display_name":"Modular design","level":2,"score":0.44278663396835327},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.42695358395576477},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.41895806789398193},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33939987421035767},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3355483412742615},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1611185371875763},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1254781186580658},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12031924724578857},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11826449632644653}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-020-03585-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03585-4","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03585-4","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32571209","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32571209","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:osti.gov:1646625","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1646625","pdf_url":"https://www.osti.gov/servlets/purl/1646625","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:doaj.org/article:e5ba32b8279b45268b11b3e0f6edc7ec","is_oa":true,"landing_page_url":"https://doaj.org/article/e5ba32b8279b45268b11b3e0f6edc7ec","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-8 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7310028","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7310028","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-03585-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03585-4","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03585-4","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1511995000","display_name":null,"funder_award_id":"Professorship","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G1724155629","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320337547","funder_display_name":"Laboratory Directed Research and Development"},{"id":"https://openalex.org/G1899721271","display_name":null,"funder_award_id":"AC05-76RL01830","funder_id":"https://openalex.org/F4320306250","funder_display_name":"Battelle"},{"id":"https://openalex.org/G2506945562","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2510423872","display_name":null,"funder_award_id":"AC05-76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3448260292","display_name":null,"funder_award_id":"Contract DE-AC05-76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G4247904154","display_name":null,"funder_award_id":"European Research Council","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G4956428346","display_name":null,"funder_award_id":"Horizon 2020 research and innovatio","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5036817778","display_name":null,"funder_award_id":"European Union's Horizon 2020 research and innov","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5200347334","display_name":null,"funder_award_id":"DE-AC05-76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G5269527469","display_name":null,"funder_award_id":"DE-AC05-76RL0","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G5321382714","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320338354","funder_display_name":"Pacific Northwest National Laboratory"},{"id":"https://openalex.org/G5726405315","display_name":null,"funder_award_id":"DE-AC05","funder_id":"https://openalex.org/F4320306250","funder_display_name":"Battelle"},{"id":"https://openalex.org/G6354064863","display_name":null,"funder_award_id":"Contract DE-AC05-76RL01830.","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6664334341","display_name":null,"funder_award_id":"DE-AC05-76RL01830","funder_id":"https://openalex.org/F4320306250","funder_display_name":"Battelle"},{"id":"https://openalex.org/G7200503492","display_name":null,"funder_award_id":"DE-AC05-76RL01830","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7560550554","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7995982022","display_name":null,"funder_award_id":"DE-AC05","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8236974595","display_name":null,"funder_award_id":"DE-AC05-76RL0183","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8277545319","display_name":null,"funder_award_id":"DE-AC05-76RL01830.","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8318064016","display_name":null,"funder_award_id":"Horizon","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G8414908677","display_name":null,"funder_award_id":"DE-AC0","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8633428685","display_name":null,"funder_award_id":"European Union's Horizon 2020 research and innovat","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G8699161308","display_name":null,"funder_award_id":"DE-AC05-76RL01830","funder_id":"https://openalex.org/F4320337547","funder_display_name":"Laboratory Directed Research and Development"},{"id":"https://openalex.org/G998451652","display_name":null,"funder_award_id":"DE-AC05-76RL01830.","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320306250","display_name":"Battelle","ror":"https://ror.org/01h5tnr73"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"},{"id":"https://openalex.org/F4320337547","display_name":"Laboratory Directed Research and Development","ror":"https://ror.org/01e41cf67"},{"id":"https://openalex.org/F4320338354","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3036934263.pdf","grobid_xml":"https://content.openalex.org/works/W3036934263.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W1878521557","https://openalex.org/W1958058086","https://openalex.org/W2107282968","https://openalex.org/W2110417468","https://openalex.org/W2112364185","https://openalex.org/W2113679889","https://openalex.org/W2124927293","https://openalex.org/W2135549360","https://openalex.org/W2143485490","https://openalex.org/W2170324950","https://openalex.org/W2303656007","https://openalex.org/W2317724253","https://openalex.org/W2347104163","https://openalex.org/W2509730012","https://openalex.org/W2530896378","https://openalex.org/W2565488022","https://openalex.org/W2592634345","https://openalex.org/W2599417231","https://openalex.org/W2736920791","https://openalex.org/W2753961085","https://openalex.org/W2763540102","https://openalex.org/W2765745983","https://openalex.org/W2773939681","https://openalex.org/W2786358949","https://openalex.org/W2789337665","https://openalex.org/W2889019390","https://openalex.org/W2889413235","https://openalex.org/W2897611961","https://openalex.org/W2900629010","https://openalex.org/W2904625720","https://openalex.org/W2913972921","https://openalex.org/W2938868597","https://openalex.org/W2949841808","https://openalex.org/W2950150251","https://openalex.org/W2950785362","https://openalex.org/W2950954328","https://openalex.org/W2953008890"],"related_works":["https://openalex.org/W638577851","https://openalex.org/W2968354375","https://openalex.org/W2359440920","https://openalex.org/W2889550857","https://openalex.org/W3013372948","https://openalex.org/W3135997498","https://openalex.org/W4242417330","https://openalex.org/W4388282505","https://openalex.org/W2361861616","https://openalex.org/W3198631238"],"abstract_inverted_index":{"ATLAS":[0],"provides":[1],"a":[2],"user-friendly,":[3],"modular":[4],"and":[5,19],"customizable":[6],"Snakemake":[7],"workflow":[8],"for":[9],"metagenome":[10],"data":[11],"processing;":[12],"it":[13],"is":[14],"easily":[15],"installable":[16],"with":[17],"conda":[18],"maintained":[20],"as":[21],"open-source":[22],"on":[23],"GitHub":[24],"at":[25],"https://github.com/metagenome-atlas/atlas.":[26]},"counts_by_year":[{"year":2026,"cited_by_count":16},{"year":2025,"cited_by_count":34},{"year":2024,"cited_by_count":52},{"year":2023,"cited_by_count":45},{"year":2022,"cited_by_count":24},{"year":2021,"cited_by_count":17},{"year":2020,"cited_by_count":8}],"updated_date":"2026-04-14T08:04:32.555800","created_date":"2025-10-10T00:00:00"}
