{"id":"https://openalex.org/W3157136291","doi":"https://doi.org/10.12688/f1000research.52569.1","title":"Bioimage analysis workflows: community resources to navigate through a complex ecosystem","display_name":"Bioimage analysis workflows: community resources to navigate through a complex ecosystem","publication_year":2021,"publication_date":"2021-04-26","ids":{"openalex":"https://openalex.org/W3157136291","doi":"https://doi.org/10.12688/f1000research.52569.1","mag":"3157136291","pmid":"https://pubmed.ncbi.nlm.nih.gov/34136134"},"language":"en","primary_location":{"id":"doi:10.12688/f1000research.52569.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.52569.1","pdf_url":"https://f1000research.com/articles/10-320/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"type":"preprint","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://f1000research.com/articles/10-320/v1/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089995455","display_name":"Perrine Paul\u2010Gilloteaux","orcid":"https://orcid.org/0000-0002-4822-165X"},"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4210144168","display_name":"Institut du Thorax","ror":"https://ror.org/049kkt456","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210096427","https://openalex.org/I4210144168","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Perrine Paul-Gilloteaux","raw_affiliation_strings":["Universit\u00e9 de Nantes, CHU Nantes, Inserm, CNRS, SFR Sant\u00e9, Inserm UMS 016, CNRS UMS 3556, Nantes, F-44000, France","Universit\u00e9 de Nantes, CNRS, INSERM, l'institut du thorax, Nantes, F-44000, France","ITX - ITX - unit\u00e9 de recherche de l'institut du thorax (8 quai Moncousu - BP 70721 - 44007 Nantes Cedex 1 - France)","SFR Fran\u00e7ois Bonamy - Structure f\u00e9d\u00e9rative de recherche Fran\u00e7ois Bonamy (8, quai Moncousu - BP 70721 - 44007 Nantes Cedex 1 - France)"],"raw_orcid":"https://orcid.org/0000-0002-4822-165X","affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Nantes, CHU Nantes, Inserm, CNRS, SFR Sant\u00e9, Inserm UMS 016, CNRS UMS 3556, Nantes, F-44000, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I97188460","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Universit\u00e9 de Nantes, CNRS, INSERM, l'institut du thorax, Nantes, F-44000, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I4210144168","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"ITX - ITX - unit\u00e9 de recherche de l'institut du thorax (8 quai Moncousu - BP 70721 - 44007 Nantes Cedex 1 - France)","institution_ids":["https://openalex.org/I4210144168"]},{"raw_affiliation_string":"SFR Fran\u00e7ois Bonamy - Structure f\u00e9d\u00e9rative de recherche Fran\u00e7ois Bonamy (8, quai Moncousu - BP 70721 - 44007 Nantes Cedex 1 - France)","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039459359","display_name":"S\u00e9bastien Tosi","orcid":null},"institutions":[{"id":"https://openalex.org/I4210122345","display_name":"Institute for Research in Biomedicine","ror":"https://ror.org/01z1gye03","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210122345","https://openalex.org/I4210132884","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"S\u00e9bastien Tosi","raw_affiliation_strings":["Institute for Research in Biomedicine, IRB Barcelona, Barcelona Institute of Science and Technology, BIST, Barcelona, Spain","IRB - Institute for Research in Biomedicine [Barcelona, Spain] (Parc Cient\u00edfic de Barcelona C/ Baldiri Reixac 10 08028 Barcelona - Spain)"],"raw_orcid":"https://orcid.org/0000-0001-8348-2778","affiliations":[{"raw_affiliation_string":"Institute for Research in Biomedicine, IRB Barcelona, Barcelona Institute of Science and Technology, BIST, Barcelona, Spain","institution_ids":["https://openalex.org/I4210122345"]},{"raw_affiliation_string":"IRB - Institute for Research in Biomedicine [Barcelona, Spain] (Parc Cient\u00edfic de Barcelona C/ Baldiri Reixac 10 08028 Barcelona - Spain)","institution_ids":["https://openalex.org/I4210122345"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013600096","display_name":"Jean-Karim H\u00e8rich\u00e9","orcid":"https://orcid.org/0000-0001-6867-9425"},"institutions":[{"id":"https://openalex.org/I4210153543","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39","country_code":"DE","type":"government","lineage":["https://openalex.org/I4210138560","https://openalex.org/I4210153543"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jean-Karim H\u00e9rich\u00e9","raw_affiliation_strings":["Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, 69117, Germany","EMBL - European Molecular Biology Laboratory [Heidelberg] (Meyerhofstra\u00dfe 1, 69117 Heidelberg, Germany - Germany)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, 69117, Germany","institution_ids":["https://openalex.org/I4210153543"]},{"raw_affiliation_string":"EMBL - European Molecular Biology Laboratory [Heidelberg] (Meyerhofstra\u00dfe 1, 69117 Heidelberg, Germany - Germany)","institution_ids":["https://openalex.org/I4210153543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032067259","display_name":"Alban Gaignard","orcid":"https://orcid.org/0000-0002-3597-8557"},"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4210144168","display_name":"Institut du Thorax","ror":"https://ror.org/049kkt456","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210096427","https://openalex.org/I4210144168","https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Alban Gaignard","raw_affiliation_strings":["Universit\u00e9 de Nantes, CNRS, INSERM, l'institut du thorax, Nantes, F-44000, France","ITX - ITX - unit\u00e9 de recherche de l'institut du thorax (8 quai Moncousu - BP 70721 - 44007 Nantes Cedex 1 - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Nantes, CNRS, INSERM, l'institut du thorax, Nantes, F-44000, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I4210144168","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"ITX - ITX - unit\u00e9 de recherche de l'institut du thorax (8 quai Moncousu - BP 70721 - 44007 Nantes Cedex 1 - France)","institution_ids":["https://openalex.org/I4210144168"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057666741","display_name":"Herv\u00e9 M\u00e9nager","orcid":"https://orcid.org/0000-0002-7552-1009"},"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/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210113863","display_name":"G\u00e9nomique Bioinformatique et Applications","ror":"https://ror.org/0264vhs54","country_code":"FR","type":"facility","lineage":["https://openalex.org/I124158823","https://openalex.org/I4210113863","https://openalex.org/I4210134562"]},{"id":"https://openalex.org/I4210138994","display_name":"Institut Fran\u00e7ais de Bioinformatique","ror":"https://ror.org/045f7pv37","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210138994"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Herv\u00e9 M\u00e9nager","raw_affiliation_strings":["CNRS, UMS 3601, Institut Fran\u00e7ais de Bioinformatique, IFB-core, Evry, 91000, France","Hub de Bioinformatique et Biostatistique, D\u00e9partement Biologie Computationnelle, Institut Pasteur, USR 3756, CNRS, Paris, 75015, France","IFB-CORE - Institut Fran\u00e7ais de Bioinformatique (INRAE\r\nDomaine de Vilvert \r\n78352 JOUY-EN-JOSAS CEDEX - France)","Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics (France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CNRS, UMS 3601, Institut Fran\u00e7ais de Bioinformatique, IFB-core, Evry, 91000, France","institution_ids":["https://openalex.org/I4210138994","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Hub de Bioinformatique et Biostatistique, D\u00e9partement Biologie Computationnelle, Institut Pasteur, USR 3756, CNRS, Paris, 75015, France","institution_ids":["https://openalex.org/I157536573","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"IFB-CORE - Institut Fran\u00e7ais de Bioinformatique (INRAE\r\nDomaine de Vilvert \r\n78352 JOUY-EN-JOSAS CEDEX - France)","institution_ids":["https://openalex.org/I4210138994","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics (France)","institution_ids":["https://openalex.org/I4210113863"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004554075","display_name":"Rapha\u00ebl Mar\u00e9e","orcid":"https://orcid.org/0000-0002-9587-1954"},"institutions":[{"id":"https://openalex.org/I157674565","display_name":"University of Li\u00e8ge","ror":"https://ror.org/00afp2z80","country_code":"BE","type":"education","lineage":["https://openalex.org/I157674565"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Rapha\u00ebl Mar\u00e9e","raw_affiliation_strings":["Montefiore Institute, University of Li\u00e8ge, Li\u00e8ge, Belgium","Universit\u00e9 de Li\u00e8ge (Place du 20-Ao\u00fbt, 7 4000 Li\u00e8ge - Belgium)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Montefiore Institute, University of Li\u00e8ge, Li\u00e8ge, Belgium","institution_ids":["https://openalex.org/I157674565"]},{"raw_affiliation_string":"Universit\u00e9 de Li\u00e8ge (Place du 20-Ao\u00fbt, 7 4000 Li\u00e8ge - Belgium)","institution_ids":["https://openalex.org/I157674565"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110768823","display_name":"Volker Baecker","orcid":null},"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Volker Baecker","raw_affiliation_strings":["Montpellier Ressources Imagerie, BioCampus Montpellier, CNRS, INSERM, University of Montpellier, Montpellier, F-34000, France","UM - Universit\u00e9 de Montpellier (163 rue Auguste Broussonnet - 34090 Montpellier - France)"],"raw_orcid":"https://orcid.org/0000-0002-9129-6403","affiliations":[{"raw_affiliation_string":"Montpellier Ressources Imagerie, BioCampus Montpellier, CNRS, INSERM, University of Montpellier, Montpellier, F-34000, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I19894307","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"UM - Universit\u00e9 de Montpellier (163 rue Auguste Broussonnet - 34090 Montpellier - France)","institution_ids":["https://openalex.org/I19894307"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040013311","display_name":"Anna H. Klemm","orcid":"https://orcid.org/0000-0002-3466-1320"},"institutions":[{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Anna Klemm","raw_affiliation_strings":["BioImage Informatics Facility, SciLifeLab, Stockholm, Sweden","IMBIM/NBIS/SciLifeLab (Sweden)"],"raw_orcid":"https://orcid.org/0000-0002-3466-1320","affiliations":[{"raw_affiliation_string":"BioImage Informatics Facility, SciLifeLab, Stockholm, Sweden","institution_ids":["https://openalex.org/I2800139495"]},{"raw_affiliation_string":"IMBIM/NBIS/SciLifeLab (Sweden)","institution_ids":["https://openalex.org/I2800139495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007975575","display_name":"Mat\u00fa\u0161 Kala\u0161","orcid":"https://orcid.org/0000-0002-1509-4981"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Mat\u00fa\u0161 Kala\u0161","raw_affiliation_strings":["Computational Biology Unit, Department of Informatics, University of Bergen, Bergen, Norway","UiB - University of Bergen (Universitetet i Bergen | Postboks 7800, NO-5020 Bergen - Norway)"],"raw_orcid":"https://orcid.org/0000-0002-1509-4981","affiliations":[{"raw_affiliation_string":"Computational Biology Unit, Department of Informatics, University of Bergen, Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]},{"raw_affiliation_string":"UiB - University of Bergen (Universitetet i Bergen | Postboks 7800, NO-5020 Bergen - Norway)","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033337912","display_name":"Chong Zhang","orcid":"https://orcid.org/0000-0003-0679-7623"},"institutions":[{"id":"https://openalex.org/I170486558","display_name":"Universitat Pompeu Fabra","ror":"https://ror.org/04n0g0b29","country_code":"ES","type":"education","lineage":["https://openalex.org/I170486558"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Chong Zhang","raw_affiliation_strings":["Department of Information and Communication Technologies, University Pompeu Fabra, Barcelona, Spain","UPF - Universitat Pompeu Fabra [Barcelona] (Pla\u00e7a de la Merc\u00e8, 10-12 - 08002 Barcelona - Spain)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Information and Communication Technologies, University Pompeu Fabra, Barcelona, Spain","institution_ids":["https://openalex.org/I170486558"]},{"raw_affiliation_string":"UPF - Universitat Pompeu Fabra [Barcelona] (Pla\u00e7a de la Merc\u00e8, 10-12 - 08002 Barcelona - Spain)","institution_ids":["https://openalex.org/I170486558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048342905","display_name":"Kota Miura","orcid":"https://orcid.org/0000-0001-6926-191X"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Kota Miura","raw_affiliation_strings":["Nikon Imaging Center, University of Heidelberg, Heidelberg, Germany","Universit\u00e4t Heidelberg [Heidelberg] = Heidelberg University (Seminarstra\u00dfe 2, 69117 Heidelberg - Germany)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Nikon Imaging Center, University of Heidelberg, Heidelberg, Germany","institution_ids":["https://openalex.org/I223822909"]},{"raw_affiliation_string":"Universit\u00e4t Heidelberg [Heidelberg] = Heidelberg University (Seminarstra\u00dfe 2, 69117 Heidelberg - Germany)","institution_ids":["https://openalex.org/I223822909"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011037748","display_name":"Julien Colombelli","orcid":"https://orcid.org/0000-0002-2784-4276"},"institutions":[{"id":"https://openalex.org/I4210122345","display_name":"Institute for Research in Biomedicine","ror":"https://ror.org/01z1gye03","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210122345","https://openalex.org/I4210132884","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Julien Colombelli","raw_affiliation_strings":["Institute for Research in Biomedicine, IRB Barcelona, Barcelona Institute of Science and Technology, BIST, Barcelona, Spain","IRB - Institute for Research in Biomedicine [Barcelona, Spain] (Parc Cient\u00edfic de Barcelona C/ Baldiri Reixac 10 08028 Barcelona - Spain)"],"raw_orcid":"https://orcid.org/0000-0002-2784-4276","affiliations":[{"raw_affiliation_string":"Institute for Research in Biomedicine, IRB Barcelona, Barcelona Institute of Science and Technology, BIST, Barcelona, Spain","institution_ids":["https://openalex.org/I4210122345"]},{"raw_affiliation_string":"IRB - Institute for Research in Biomedicine [Barcelona, Spain] (Parc Cient\u00edfic de Barcelona C/ Baldiri Reixac 10 08028 Barcelona - Spain)","institution_ids":["https://openalex.org/I4210122345"]}]}],"institutions":[],"countries_distinct_count":6,"institutions_distinct_count":12,"corresponding_author_ids":["https://openalex.org/A5089995455"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210144168","https://openalex.org/I97188460"],"apc_list":{"value":1350,"currency":"USD","value_usd":1350},"apc_paid":{"value":1350,"currency":"USD","value_usd":1350},"fwci":4.4755,"has_fulltext":true,"cited_by_count":23,"citation_normalized_percentile":{"value":0.94121024,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"10","issue":null,"first_page":"320","last_page":"320"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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":0.9887999892234802,"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":0.9817000031471252,"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/workflow","display_name":"Workflow","score":0.8901437520980835},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7264352440834045},{"id":"https://openalex.org/keywords/cyberinfrastructure","display_name":"Cyberinfrastructure","score":0.6740645170211792},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.636178731918335},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.6084325313568115},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.6083586812019348},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5098218321800232},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.44665971398353577},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.4399661123752594},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.42143717408180237},{"id":"https://openalex.org/keywords/knowledge-management","display_name":"Knowledge management","score":0.3748054504394531},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.17617595195770264},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.16745492815971375}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.8901437520980835},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7264352440834045},{"id":"https://openalex.org/C2776397876","wikidata":"https://www.wikidata.org/wiki/Q1450531","display_name":"Cyberinfrastructure","level":2,"score":0.6740645170211792},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.636178731918335},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.6084325313568115},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.6083586812019348},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5098218321800232},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.44665971398353577},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.4399661123752594},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.42143717408180237},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.3748054504394531},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.17617595195770264},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.16745492815971375},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017753","descriptor_name":"Ecosystem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017753","descriptor_name":"Ecosystem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017753","descriptor_name":"Ecosystem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017753","descriptor_name":"Ecosystem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":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":7,"locations":[{"id":"doi:10.12688/f1000research.52569.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.52569.1","pdf_url":"https://f1000research.com/articles/10-320/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},{"id":"pmid:34136134","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34136134","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":"F1000Research","raw_type":null},{"id":"pmh:oai:HAL:hal-03208600v1","is_oa":true,"landing_page_url":"https://nantes-universite.hal.science/hal-03208600","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"F1000Research, 2021, 10, pp.320. &#x27E8;10.12688/f1000research.52569.1&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:cdc21438d50f4c20aca76cef8c668969","is_oa":true,"landing_page_url":"https://doaj.org/article/cdc21438d50f4c20aca76cef8c668969","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"F1000Research, Vol 10 (2021)","raw_type":"article"},{"id":"pmh:oai:orbi.ulg.ac.be:2268/297482","is_oa":true,"landing_page_url":"https://orbi.uliege.be/handle/2268/297482","pdf_url":null,"source":{"id":"https://openalex.org/S4306400651","display_name":"Open Repository and Bibliography (University of Li\u00e8ge)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I157674565","host_organization_name":"University of Li\u00e8ge","host_organization_lineage":["https://openalex.org/I157674565"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"F1000Research, 10 (2021)","raw_type":"peer reviewed"},{"id":"pmh:oai:oskar-bordeaux.fr:20.500.12278/39816","is_oa":false,"landing_page_url":"https://oskar-bordeaux.fr/handle/20.500.12278/39816","pdf_url":null,"source":{"id":"https://openalex.org/S4306402569","display_name":"Oskar-Bordeaux (Universite de Bordeaux)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article de revue"},{"id":"pmh:oai:pubmedcentral.nih.gov:8182692","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8182692","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"F1000Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.12688/f1000research.52569.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.52569.1","pdf_url":"https://f1000research.com/articles/10-320/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1239563205","display_name":null,"funder_award_id":"ANR-10-INBS-04;ANR-11-INBS-0013","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G1960712518","display_name":null,"funder_award_id":"ANR-10-INBS-04","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G2558356852","display_name":null,"funder_award_id":"ANR-11-INBS-0013","funder_id":"https://openalex.org/F4320316916","funder_display_name":"Institut Fran\u00e7ais de Bioinformatique"},{"id":"https://openalex.org/G5802621812","display_name":null,"funder_award_id":"ANR-11-INBS","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6068764742","display_name":null,"funder_award_id":"ANR-11-INBS-0013","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7240651115","display_name":null,"funder_award_id":"ANR-10","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320316916","display_name":"Institut Fran\u00e7ais de Bioinformatique","ror":"https://ror.org/045f7pv37"},{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320331041","display_name":"Institut Fran\u00e7ais","ror":"https://ror.org/047hdnt12"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3157136291.pdf","grobid_xml":"https://content.openalex.org/works/W3157136291.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1833667256","https://openalex.org/W1863538613","https://openalex.org/W1979900513","https://openalex.org/W2031502025","https://openalex.org/W2037947871","https://openalex.org/W2063815712","https://openalex.org/W2099540110","https://openalex.org/W2103706175","https://openalex.org/W2107554012","https://openalex.org/W2135077150","https://openalex.org/W2141541659","https://openalex.org/W2145374174","https://openalex.org/W2167279371","https://openalex.org/W2170358380","https://openalex.org/W2302501749","https://openalex.org/W2310259903","https://openalex.org/W2346143774","https://openalex.org/W2539403003","https://openalex.org/W2604622795","https://openalex.org/W2741507519","https://openalex.org/W2758694956","https://openalex.org/W2773787581","https://openalex.org/W2807738603","https://openalex.org/W2914118134","https://openalex.org/W2952860256","https://openalex.org/W2955703013","https://openalex.org/W2967150655","https://openalex.org/W2980998394","https://openalex.org/W3006653136","https://openalex.org/W3012542478","https://openalex.org/W3025792028","https://openalex.org/W3029928583","https://openalex.org/W3033828193","https://openalex.org/W3035237700","https://openalex.org/W3121377442","https://openalex.org/W3122109253","https://openalex.org/W3127613064","https://openalex.org/W3146451788","https://openalex.org/W3156643147","https://openalex.org/W3158137142","https://openalex.org/W3164357081","https://openalex.org/W3203586192","https://openalex.org/W3203599979","https://openalex.org/W4210644165","https://openalex.org/W4211195729","https://openalex.org/W4249759701","https://openalex.org/W6784245870"],"related_works":["https://openalex.org/W273500195","https://openalex.org/W2043019925","https://openalex.org/W4236056781","https://openalex.org/W4399254454","https://openalex.org/W4293768956","https://openalex.org/W2773781927","https://openalex.org/W1999096178","https://openalex.org/W2184477657","https://openalex.org/W90628286","https://openalex.org/W2988517541"],"abstract_inverted_index":{"Workflows":[0],"are":[1,139],"the":[2,8,20,27,38,41,105,108,129,170,194,218,229],"keystone":[3],"of":[4,11,22,32,40,53,85,133],"bioimage":[5,56,80,134],"analysis,":[6],"and":[7,25,59,72,78,90,98,115,126,131,162,166,180,200,210,213,231,237],"NEUBIAS":[9,43],"(Network":[10],"European":[12],"BioImage":[13],"AnalystS)":[14],"community":[15],"is":[16,37,48],"trying":[17],"to":[18,49,67,75,140,159,177,193,196,208,214,225,240],"gather":[19],"actors":[21],"this":[23,63,184,203],"field":[24],"organize":[26],"information":[28],"around":[29],"them.":[30],"One":[31],"its":[33],"most":[34],"recent":[35],"outputs":[36],"opening":[39],"F1000Research":[42],"gateway,":[44],"whose":[45],"main":[46],"objective":[47],"offer":[50],"a":[51,101,116],"channel":[52],"publication":[54],"for":[55,110,128],"analysis":[57,81,92,135],"workflows":[58,143,216,227,243],"associated":[60],"resources.":[61],"In":[62,183],"paper":[64],"we":[65,187],"want":[66],"express":[68],"some":[69,191],"personal":[70],"opinions":[71],"recommendations":[73],"related":[74],"finding,":[76],"handling":[77],"developing":[79],"workflows.":[82,136],"The":[83],"emergence":[84],"\"big":[86],"data\"":[87],"in":[88,144,147,206,228],"bioimaging":[89],"resource-intensive":[91],"algorithms":[93],"make":[94,241],"local":[95],"data":[96,111],"storage":[97],"computing":[99],"solutions":[100],"limiting":[102],"factor.":[103],"At":[104],"same":[106,219],"time,":[107],"need":[109],"sharing":[112,132],"with":[113],"collaborators":[114],"general":[117],"shift":[118],"towards":[119],"remote":[120,145],"work,":[121],"have":[122],"created":[123],"new":[124],"challenges":[125,138,199],"avenues":[127],"execution":[130],"These":[137],"reproducibly":[141],"run":[142,226],"environments,":[146],"particular":[148],"when":[149],"their":[150,164],"components":[151],"come":[152],"from":[153],"different":[154],"software":[155],"packages,":[156],"but":[157],"also":[158,222],"document":[160],"them":[161],"link":[163],"parameters":[165],"results":[167],"by":[168],"following":[169],"FAIR":[171],"principles":[172],"(Findable,":[173],"Accessible,":[174],"Interoperable,":[175],"Reusable)":[176],"foster":[178],"open":[179],"reproducible":[181],"science.":[182],"opinion":[185],"paper,":[186],"focus":[188],"on":[189,232],"giving":[190],"directions":[192],"reader":[195],"tackle":[197],"these":[198,242],"navigate":[201],"through":[202],"complex":[204],"ecosystem,":[205],"order":[207],"find":[209],"use":[211],"workflows,":[212],"compare":[215],"addressing":[217],"problem.":[220],"We":[221],"discuss":[223],"tools":[224],"cloud":[230],"High":[233],"Performance":[234],"Computing":[235],"resources,":[236],"suggest":[238],"ways":[239],"FAIR.":[244]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
