{"id":"https://openalex.org/W2110417468","doi":"https://doi.org/10.1093/bioinformatics/bts480","title":"Snakemake\u2014a scalable bioinformatics workflow engine","display_name":"Snakemake\u2014a scalable bioinformatics workflow engine","publication_year":2012,"publication_date":"2012-08-20","ids":{"openalex":"https://openalex.org/W2110417468","doi":"https://doi.org/10.1093/bioinformatics/bts480","mag":"2110417468","pmid":"https://pubmed.ncbi.nlm.nih.gov/22908215"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts480","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts480","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005124395","display_name":"Johannes K\u00f6ster","orcid":"https://orcid.org/0000-0001-9818-9320"},"institutions":[{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Johannes K\u00f6ster","raw_affiliation_strings":["1 Genome Informatics, Institute of Human Genetics, University of Duisburg-Essen and 2Paediatric Oncology, University Childrens Hospital, 45147 Essen, Germany"],"affiliations":[{"raw_affiliation_string":"1 Genome Informatics, Institute of Human Genetics, University of Duisburg-Essen and 2Paediatric Oncology, University Childrens Hospital, 45147 Essen, Germany","institution_ids":["https://openalex.org/I62318514"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059606670","display_name":"Sven Rahmann","orcid":"https://orcid.org/0000-0002-8536-6065"},"institutions":[{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sven Rahmann","raw_affiliation_strings":["1 Genome Informatics, Institute of Human Genetics, University of Duisburg-Essen and 2Paediatric Oncology, University Childrens Hospital, 45147 Essen, Germany"],"affiliations":[{"raw_affiliation_string":"1 Genome Informatics, Institute of Human Genetics, University of Duisburg-Essen and 2Paediatric Oncology, University Childrens Hospital, 45147 Essen, Germany","institution_ids":["https://openalex.org/I62318514"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5005124395"],"corresponding_institution_ids":["https://openalex.org/I62318514"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":5.9165,"has_fulltext":false,"cited_by_count":3079,"citation_normalized_percentile":{"value":0.97201502,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"28","issue":"19","first_page":"2520","last_page":"2522"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9984999895095825,"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":0.9984999895095825,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.9980999827384949,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9807999730110168,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.9087606072425842},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.9085725545883179},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7792655825614929},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.7320083379745483},{"id":"https://openalex.org/keywords/workstation","display_name":"Workstation","score":0.6199425458908081},{"id":"https://openalex.org/keywords/workflow-management-system","display_name":"Workflow management system","score":0.5982745885848999},{"id":"https://openalex.org/keywords/workflow-engine","display_name":"Workflow engine","score":0.5675064325332642},{"id":"https://openalex.org/keywords/windows-workflow-foundation","display_name":"Windows Workflow Foundation","score":0.5174134969711304},{"id":"https://openalex.org/keywords/workflow-technology","display_name":"Workflow technology","score":0.509907603263855},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.4896007180213928},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.43555542826652527},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.38647374510765076},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3667159676551819},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3475682735443115}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.9087606072425842},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.9085725545883179},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7792655825614929},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.7320083379745483},{"id":"https://openalex.org/C67953723","wikidata":"https://www.wikidata.org/wiki/Q192525","display_name":"Workstation","level":2,"score":0.6199425458908081},{"id":"https://openalex.org/C140824633","wikidata":"https://www.wikidata.org/wiki/Q2808660","display_name":"Workflow management system","level":3,"score":0.5982745885848999},{"id":"https://openalex.org/C188220564","wikidata":"https://www.wikidata.org/wiki/Q3325097","display_name":"Workflow engine","level":3,"score":0.5675064325332642},{"id":"https://openalex.org/C163888707","wikidata":"https://www.wikidata.org/wiki/Q1154450","display_name":"Windows Workflow Foundation","level":4,"score":0.5174134969711304},{"id":"https://openalex.org/C19612761","wikidata":"https://www.wikidata.org/wiki/Q8034836","display_name":"Workflow technology","level":3,"score":0.509907603263855},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.4896007180213928},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.43555542826652527},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.38647374510765076},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3667159676551819},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3475682735443115}],"mesh":[{"descriptor_ui":"D001330","descriptor_name":"Electronic Data Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001330","descriptor_name":"Electronic Data Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001330","descriptor_name":"Electronic Data Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bts480","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts480","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22908215","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22908215","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmid:29788404","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29788404","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:cwi:oai:cwi.nl:25257","is_oa":false,"landing_page_url":"https://ir.cwi.nl/pub/25257","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W1498492241","https://openalex.org/W1965856472","https://openalex.org/W1988431525","https://openalex.org/W2001914359","https://openalex.org/W2011301426","https://openalex.org/W2061669179","https://openalex.org/W2066047894","https://openalex.org/W2097438318","https://openalex.org/W2103441770","https://openalex.org/W2108234281","https://openalex.org/W2119298573","https://openalex.org/W2123100726","https://openalex.org/W2128374023","https://openalex.org/W2136482257","https://openalex.org/W2151436925","https://openalex.org/W2168103533","https://openalex.org/W4238387639","https://openalex.org/W6665940981"],"related_works":["https://openalex.org/W2373541195","https://openalex.org/W2376410910","https://openalex.org/W2091596831","https://openalex.org/W2166163080","https://openalex.org/W291310304","https://openalex.org/W2374818432","https://openalex.org/W2365658322","https://openalex.org/W2379425324","https://openalex.org/W2028407054","https://openalex.org/W329008868"],"abstract_inverted_index":{"johannes.koester@uni-due.de.":[0]},"counts_by_year":[{"year":2026,"cited_by_count":90},{"year":2025,"cited_by_count":259},{"year":2024,"cited_by_count":357},{"year":2023,"cited_by_count":355},{"year":2022,"cited_by_count":374},{"year":2021,"cited_by_count":577},{"year":2020,"cited_by_count":449},{"year":2019,"cited_by_count":251},{"year":2018,"cited_by_count":153},{"year":2017,"cited_by_count":114},{"year":2016,"cited_by_count":55},{"year":2015,"cited_by_count":22},{"year":2014,"cited_by_count":18},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-16T08:26:57.006410","created_date":"2016-06-24T00:00:00"}
