{"id":"https://openalex.org/W2097438318","doi":"https://doi.org/10.1093/bioinformatics/bts167","title":"Bpipe: a tool for running and managing bioinformatics pipelines","display_name":"Bpipe: a tool for running and managing bioinformatics pipelines","publication_year":2012,"publication_date":"2012-04-12","ids":{"openalex":"https://openalex.org/W2097438318","doi":"https://doi.org/10.1093/bioinformatics/bts167","mag":"2097438318","pmid":"https://pubmed.ncbi.nlm.nih.gov/22500002"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts167","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts167","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/A5042538267","display_name":"Simon Sadedin","orcid":"https://orcid.org/0000-0002-2144-7894"},"institutions":[{"id":"https://openalex.org/I347366330","display_name":"Melbourne Bioinformatics","ror":"https://ror.org/05gkzhv48","country_code":"AU","type":"education","lineage":["https://openalex.org/I347366330"]},{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]},{"id":"https://openalex.org/I1321649718","display_name":"Royal Children's Hospital","ror":"https://ror.org/02rktxt32","country_code":"AU","type":"healthcare","lineage":["https://openalex.org/I1321649718"]},{"id":"https://openalex.org/I4210150290","display_name":"Murdoch Children's Research Institute","ror":"https://ror.org/048fyec77","country_code":"AU","type":"funder","lineage":["https://openalex.org/I4210150290"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Simon P. Sadedin","raw_affiliation_strings":["1 Murdoch Childrens Research Institute, Royal Children's Hospital, Flemington Road, Parkville, Victoria 3052 and 2Victorian Life Sciences Computation Initiative, The University of Melbourne, Carlton, Victoria 3010, Australia"],"affiliations":[{"raw_affiliation_string":"1 Murdoch Childrens Research Institute, Royal Children's Hospital, Flemington Road, Parkville, Victoria 3052 and 2Victorian Life Sciences Computation Initiative, The University of Melbourne, Carlton, Victoria 3010, Australia","institution_ids":["https://openalex.org/I1321649718","https://openalex.org/I165779595","https://openalex.org/I4210150290","https://openalex.org/I347366330"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056869626","display_name":"Bernard J. Pope","orcid":"https://orcid.org/0000-0002-4840-1095"},"institutions":[{"id":"https://openalex.org/I4210150290","display_name":"Murdoch Children's Research Institute","ror":"https://ror.org/048fyec77","country_code":"AU","type":"funder","lineage":["https://openalex.org/I4210150290"]},{"id":"https://openalex.org/I347366330","display_name":"Melbourne Bioinformatics","ror":"https://ror.org/05gkzhv48","country_code":"AU","type":"education","lineage":["https://openalex.org/I347366330"]},{"id":"https://openalex.org/I1321649718","display_name":"Royal Children's Hospital","ror":"https://ror.org/02rktxt32","country_code":"AU","type":"healthcare","lineage":["https://openalex.org/I1321649718"]},{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Bernard Pope","raw_affiliation_strings":["1 Murdoch Childrens Research Institute, Royal Children's Hospital, Flemington Road, Parkville, Victoria 3052 and 2Victorian Life Sciences Computation Initiative, The University of Melbourne, Carlton, Victoria 3010, Australia"],"affiliations":[{"raw_affiliation_string":"1 Murdoch Childrens Research Institute, Royal Children's Hospital, Flemington Road, Parkville, Victoria 3052 and 2Victorian Life Sciences Computation Initiative, The University of Melbourne, Carlton, Victoria 3010, Australia","institution_ids":["https://openalex.org/I1321649718","https://openalex.org/I165779595","https://openalex.org/I4210150290","https://openalex.org/I347366330"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5066632434","display_name":"Alicia Oshlack","orcid":"https://orcid.org/0000-0001-9788-5690"},"institutions":[{"id":"https://openalex.org/I4210150290","display_name":"Murdoch Children's Research Institute","ror":"https://ror.org/048fyec77","country_code":"AU","type":"funder","lineage":["https://openalex.org/I4210150290"]},{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]},{"id":"https://openalex.org/I347366330","display_name":"Melbourne Bioinformatics","ror":"https://ror.org/05gkzhv48","country_code":"AU","type":"education","lineage":["https://openalex.org/I347366330"]},{"id":"https://openalex.org/I1321649718","display_name":"Royal Children's Hospital","ror":"https://ror.org/02rktxt32","country_code":"AU","type":"healthcare","lineage":["https://openalex.org/I1321649718"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Alicia Oshlack","raw_affiliation_strings":["1 Murdoch Childrens Research Institute, Royal Children's Hospital, Flemington Road, Parkville, Victoria 3052 and 2Victorian Life Sciences Computation Initiative, The University of Melbourne, Carlton, Victoria 3010, Australia"],"affiliations":[{"raw_affiliation_string":"1 Murdoch Childrens Research Institute, Royal Children's Hospital, Flemington Road, Parkville, Victoria 3052 and 2Victorian Life Sciences Computation Initiative, The University of Melbourne, Carlton, Victoria 3010, Australia","institution_ids":["https://openalex.org/I1321649718","https://openalex.org/I165779595","https://openalex.org/I4210150290","https://openalex.org/I347366330"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5042538267"],"corresponding_institution_ids":["https://openalex.org/I1321649718","https://openalex.org/I165779595","https://openalex.org/I347366330","https://openalex.org/I4210150290"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":20.8245,"has_fulltext":false,"cited_by_count":181,"citation_normalized_percentile":{"value":0.99279665,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"28","issue":"11","first_page":"1525","last_page":"1526"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9995999932289124,"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"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9995999932289124,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.996999979019165,"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/T11937","display_name":"Research Data Management Practices","score":0.9902999997138977,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5681743621826172},{"id":"https://openalex.org/keywords/pipeline-transport","display_name":"Pipeline transport","score":0.49158963561058044},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.42538657784461975},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38592666387557983},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3651256561279297},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.2463371455669403},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2273765206336975}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5681743621826172},{"id":"https://openalex.org/C175309249","wikidata":"https://www.wikidata.org/wiki/Q725864","display_name":"Pipeline transport","level":2,"score":0.49158963561058044},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.42538657784461975},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38592666387557983},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3651256561279297},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.2463371455669403},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2273765206336975},{"id":"https://openalex.org/C87717796","wikidata":"https://www.wikidata.org/wiki/Q146326","display_name":"Environmental engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","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":"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":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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bts167","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts167","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:22500002","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22500002","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}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.550000011920929,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":4,"referenced_works":["https://openalex.org/W2103441770","https://openalex.org/W2123100726","https://openalex.org/W2136482257","https://openalex.org/W2168103533"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"Bpipe":[0],"is":[1],"freely":[2],"available":[3],"from":[4],"http://bpipe.org":[5],"under":[6],"a":[7],"BSD":[8],"License.":[9]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":12},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":15},{"year":2020,"cited_by_count":20},{"year":2019,"cited_by_count":21},{"year":2018,"cited_by_count":22},{"year":2017,"cited_by_count":26},{"year":2016,"cited_by_count":15},{"year":2015,"cited_by_count":17},{"year":2014,"cited_by_count":9},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
