{"id":"https://openalex.org/W4387005656","doi":"https://doi.org/10.1109/e-science58273.2023.10254945","title":"Integrating R in a Distributed Scientific Workflow via a Jupyter-Based Environment","display_name":"Integrating R in a Distributed Scientific Workflow via a Jupyter-Based Environment","publication_year":2023,"publication_date":"2023-09-25","ids":{"openalex":"https://openalex.org/W4387005656","doi":"https://doi.org/10.1109/e-science58273.2023.10254945"},"language":"en","primary_location":{"id":"doi:10.1109/e-science58273.2023.10254945","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/e-science58273.2023.10254945","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE 19th International Conference on e-Science (e-Science)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://handle.uba.uva.nl/personal/pure/en/publications/integrating-r-in-a-distributed-scientific-workflow-via-a-jupyterbased-environment(4bb01537-b5aa-4bd5-bdd0-3881b006b6c9).html","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5109640871","display_name":"Mariantonietta La Marra","orcid":"https://orcid.org/0009-0002-2070-7778"},"institutions":[{"id":"https://openalex.org/I142910587","display_name":"University of Salento","ror":"https://ror.org/03fc1k060","country_code":"IT","type":"education","lineage":["https://openalex.org/I142910587"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Mariantonietta La Marra","raw_affiliation_strings":["University of Salento,Department of Biological and Environmental Sciences and Technologies,Lecce,Italy","Department of Biological and Environmental Sciences and Technologies, University of Salento, Lecce, Italy"],"affiliations":[{"raw_affiliation_string":"University of Salento,Department of Biological and Environmental Sciences and Technologies,Lecce,Italy","institution_ids":["https://openalex.org/I142910587"]},{"raw_affiliation_string":"Department of Biological and Environmental Sciences and Technologies, University of Salento, Lecce, Italy","institution_ids":["https://openalex.org/I142910587"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5092933264","display_name":"Diederik Blanson Henkemans","orcid":null},"institutions":[{"id":"https://openalex.org/I55106644","display_name":"Amsterdam University of Applied Sciences","ror":"https://ror.org/00y2z2s03","country_code":"NL","type":"education","lineage":["https://openalex.org/I55106644"]},{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Diederik Blanson Henkemans","raw_affiliation_strings":["Multiscale Networked System, University of Amsterdam,Amsterdam,The Netherlands","Multiscale Networked System, University of Amsterdam, Amsterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Multiscale Networked System, University of Amsterdam,Amsterdam,The Netherlands","institution_ids":["https://openalex.org/I55106644"]},{"raw_affiliation_string":"Multiscale Networked System, University of Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015031207","display_name":"Jessica Titocci","orcid":"https://orcid.org/0000-0001-9157-1578"},"institutions":[{"id":"https://openalex.org/I4210140832","display_name":"Terrestrial Ecosystem Research Network","ror":"https://ror.org/03wxseg04","country_code":"AU","type":"facility","lineage":["https://openalex.org/I4210140832"]},{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"funder","lineage":["https://openalex.org/I4210155236"]}],"countries":["AU","IT"],"is_corresponding":false,"raw_author_name":"Jessica Titocci","raw_affiliation_strings":["Institute of Research on Terrestrial Ecosystems, National Research Council,Lecce,Italy","Institute of Research on Terrestrial Ecosystems, National Research Council, Lecce, Italy"],"affiliations":[{"raw_affiliation_string":"Institute of Research on Terrestrial Ecosystems, National Research Council,Lecce,Italy","institution_ids":["https://openalex.org/I4210140832","https://openalex.org/I4210155236"]},{"raw_affiliation_string":"Institute of Research on Terrestrial Ecosystems, National Research Council, Lecce, Italy","institution_ids":["https://openalex.org/I4210155236"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088328975","display_name":"Spiros Koulouzis","orcid":"https://orcid.org/0000-0001-8652-315X"},"institutions":[{"id":"https://openalex.org/I55106644","display_name":"Amsterdam University of Applied Sciences","ror":"https://ror.org/00y2z2s03","country_code":"NL","type":"education","lineage":["https://openalex.org/I55106644"]},{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Spiros Koulouzis","raw_affiliation_strings":["Multiscale Networked System, University of Amsterdam,Amsterdam,The Netherlands","Multiscale Networked System, University of Amsterdam, Amsterdam, The Netherlands","LifeWatch ERIC, Virtual Lab, Innovation Center (VLIC), Amsterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Multiscale Networked System, University of Amsterdam,Amsterdam,The Netherlands","institution_ids":["https://openalex.org/I55106644"]},{"raw_affiliation_string":"Multiscale Networked System, University of Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]},{"raw_affiliation_string":"LifeWatch ERIC, Virtual Lab, Innovation Center (VLIC), Amsterdam, The Netherlands","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010871069","display_name":"Ilaria Rosati","orcid":"https://orcid.org/0000-0003-3422-7230"},"institutions":[{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"funder","lineage":["https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I4210140832","display_name":"Terrestrial Ecosystem Research Network","ror":"https://ror.org/03wxseg04","country_code":"AU","type":"facility","lineage":["https://openalex.org/I4210140832"]}],"countries":["AU","IT"],"is_corresponding":false,"raw_author_name":"Ilaria Rosati","raw_affiliation_strings":["Institute of Research on Terrestrial Ecosystems, National Research Council,Lecce,Italy","Institute of Research on Terrestrial Ecosystems, National Research Council, Lecce, Italy"],"affiliations":[{"raw_affiliation_string":"Institute of Research on Terrestrial Ecosystems, National Research Council,Lecce,Italy","institution_ids":["https://openalex.org/I4210140832","https://openalex.org/I4210155236"]},{"raw_affiliation_string":"Institute of Research on Terrestrial Ecosystems, National Research Council, Lecce, Italy","institution_ids":["https://openalex.org/I4210155236"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068341719","display_name":"Zhiming Zhao","orcid":"https://orcid.org/0000-0002-6717-9418"},"institutions":[{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]},{"id":"https://openalex.org/I55106644","display_name":"Amsterdam University of Applied Sciences","ror":"https://ror.org/00y2z2s03","country_code":"NL","type":"education","lineage":["https://openalex.org/I55106644"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Zhiming Zhao","raw_affiliation_strings":["Multiscale Networked System, University of Amsterdam,Amsterdam,The Netherlands","LifeWatch ERIC, Virtual Lab, Innovation Center (VLIC), Amsterdam, The Netherlands","Multiscale Networked System, University of Amsterdam, Amsterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Multiscale Networked System, University of Amsterdam,Amsterdam,The Netherlands","institution_ids":["https://openalex.org/I55106644"]},{"raw_affiliation_string":"LifeWatch ERIC, Virtual Lab, Innovation Center (VLIC), Amsterdam, The Netherlands","institution_ids":[]},{"raw_affiliation_string":"Multiscale Networked System, University of Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5109640871"],"corresponding_institution_ids":["https://openalex.org/I142910587"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.18800228,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"2"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9993000030517578,"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":0.9993000030517578,"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/T11937","display_name":"Research Data Management Practices","score":0.9915000200271606,"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"}},{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9455999732017517,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/python","display_name":"Python (programming language)","score":0.8004110455513},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7986334562301636},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7247711420059204},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.6999865174293518},{"id":"https://openalex.org/keywords/virtual-machine","display_name":"Virtual machine","score":0.513064980506897},{"id":"https://openalex.org/keywords/e-science","display_name":"e-Science","score":0.47386813163757324},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4714081287384033},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.4587770402431488},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.24099746346473694},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1536845564842224},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.08726009726524353},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.0845404863357544}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8004110455513},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7986334562301636},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7247711420059204},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.6999865174293518},{"id":"https://openalex.org/C25344961","wikidata":"https://www.wikidata.org/wiki/Q192726","display_name":"Virtual machine","level":2,"score":0.513064980506897},{"id":"https://openalex.org/C517757529","wikidata":"https://www.wikidata.org/wiki/Q1273268","display_name":"e-Science","level":3,"score":0.47386813163757324},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4714081287384033},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.4587770402431488},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.24099746346473694},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1536845564842224},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.08726009726524353},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0845404863357544},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C187691185","wikidata":"https://www.wikidata.org/wiki/Q2020720","display_name":"Grid","level":2,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/e-science58273.2023.10254945","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/e-science58273.2023.10254945","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE 19th International Conference on e-Science (e-Science)","raw_type":"proceedings-article"},{"id":"pmh:oai:dare.uva.nl:openaire_cris_publications/4bb01537-b5aa-4bd5-bdd0-3881b006b6c9","is_oa":true,"landing_page_url":"https://handle.uba.uva.nl/personal/pure/en/publications/integrating-r-in-a-distributed-scientific-workflow-via-a-jupyterbased-environment(4bb01537-b5aa-4bd5-bdd0-3881b006b6c9).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400088","display_name":"UvA-DARE (University of Amsterdam)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887064364","host_organization_name":"University of Amsterdam","host_organization_lineage":["https://openalex.org/I887064364"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"La Marra, M, Blanson Henkemans, D, Titocci, J, Koulouzis, S, Rosati, I & Zhao, Z 2023, Integrating R in a distributed scientific workflow via a Jupyter-based Environment. in 2023 IEEE 19th International Conference on e-Science : (e-Science) : October 9-14, 2023, Limassol, Cyprus : proceedings., 70, Piscataway, NJ, pp. 481-482, 19th IEEE International Conference on e-Science, e-Science 2023, Limassol, Cyprus, 9/10/23. https://doi.org/10.1109/e-Science58273.2023.10254945","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:zenodo.org:8413952","is_oa":true,"landing_page_url":"https://zenodo.org/record/8413952","pdf_url":"https://zenodo.org/record/8413952","source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/conferencePaper"},{"id":"pmh:oai:dare.uva.nl:openaire/4bb01537-b5aa-4bd5-bdd0-3881b006b6c9","is_oa":true,"landing_page_url":"https://hdl.handle.net/11245.1/4bb01537-b5aa-4bd5-bdd0-3881b006b6c9","pdf_url":null,"source":{"id":"https://openalex.org/S4306400088","display_name":"UvA-DARE (University of Amsterdam)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887064364","host_organization_name":"University of Amsterdam","host_organization_lineage":["https://openalex.org/I887064364"],"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":"La Marra, M, Blanson Henkemans, D, Titocci, J, Koulouzis, S, Rosati, I & Zhao, Z 2023, Integrating R in a distributed scientific workflow via a Jupyter-based Environment. in 2023 IEEE 19th International Conference on e-Science : (e-Science) : October 9-14, 2023, Limassol, Cyprus : proceedings., 70, Piscataway, NJ, pp. 481-482, 19th IEEE International Conference on e-Science, e-Science 2023, Limassol, Cyprus, 9/10/23. https://doi.org/10.1109/e-Science58273.2023.10254945","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"pmh:oai:dare.uva.nl:openaire_cris_publications/4bb01537-b5aa-4bd5-bdd0-3881b006b6c9","is_oa":true,"landing_page_url":"https://handle.uba.uva.nl/personal/pure/en/publications/integrating-r-in-a-distributed-scientific-workflow-via-a-jupyterbased-environment(4bb01537-b5aa-4bd5-bdd0-3881b006b6c9).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400088","display_name":"UvA-DARE (University of Amsterdam)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887064364","host_organization_name":"University of Amsterdam","host_organization_lineage":["https://openalex.org/I887064364"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"La Marra, M, Blanson Henkemans, D, Titocci, J, Koulouzis, S, Rosati, I & Zhao, Z 2023, Integrating R in a distributed scientific workflow via a Jupyter-based Environment. in 2023 IEEE 19th International Conference on e-Science : (e-Science) : October 9-14, 2023, Limassol, Cyprus : proceedings., 70, Piscataway, NJ, pp. 481-482, 19th IEEE International Conference on e-Science, e-Science 2023, Limassol, Cyprus, 9/10/23. https://doi.org/10.1109/e-Science58273.2023.10254945","raw_type":"info:eu-repo/semantics/publishedVersion"},"sustainable_development_goals":[{"score":0.6800000071525574,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G2300613588","display_name":null,"funder_award_id":"860627","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3912856170","display_name":null,"funder_award_id":"824068","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G8072458336","display_name":null,"funder_award_id":"101094227","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320325020","display_name":"LifeWatch \u2013 Niclas \u00d6berg Foundation","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":6,"referenced_works":["https://openalex.org/W2898671507","https://openalex.org/W3044381711","https://openalex.org/W3215151014","https://openalex.org/W4225000460","https://openalex.org/W4293768412","https://openalex.org/W6804229246"],"related_works":["https://openalex.org/W572531444","https://openalex.org/W2921575628","https://openalex.org/W2033236835","https://openalex.org/W2137470515","https://openalex.org/W2091936039","https://openalex.org/W4250569211","https://openalex.org/W2287633205","https://openalex.org/W2156145604","https://openalex.org/W1487214958","https://openalex.org/W2167756108"],"abstract_inverted_index":{"The":[0,65,96],"Research":[1,9],"Infrastructure":[2],"Lifewatch":[3],"Italy":[4],"has":[5,47],"developed":[6],"a":[7,23,40,60,102,123],"Virtual":[8],"Environment":[10],"for":[11,28,55],"studies":[12],"on":[13,21,62],"phytoplankton":[14],"ecology":[15],"that":[16],"includes":[17],"computational":[18,107],"services":[19],"based":[20],"R,":[22],"programming":[24],"language":[25],"widely":[26],"used":[27],"data":[29],"science":[30],"and":[31,119,127],"ecology.":[32],"Here":[33],"we":[34],"have":[35],"verified":[36],"the":[37,44,63,69,86,89,106],"feasibility":[38],"of":[39,71,88,91,98,109],"Jupyter-based":[41],"research":[42,75,121],"environment,":[43],"NaaVRE,":[45],"which":[46],"so":[48],"far":[49],"been":[50],"tested":[51],"only":[52],"with":[53,105],"Python,":[54],"running":[56],"R":[57,72],"code":[58],"in":[59,73,82,94,101,115,122],"workflow":[61],"Cloud.":[64],"successful":[66],"execution":[67],"demonstrated":[68],"potentialities":[70],"Cloud-based":[74],"environments.":[76],"However,":[77],"further":[78],"investigation":[79],"is":[80],"needed,":[81],"particular,":[83],"to":[84],"overcome":[85],"issue":[87],"lack":[90],"dependencies":[92],"declaration":[93],"R.":[95],"possibility":[97],"performing":[99],"analyses":[100],"workflow,":[103],"combined":[104],"resources":[108],"remote":[110],"infrastructures,":[111],"will":[112],"support":[113],"scientists":[114],"carrying":[116],"out":[117],"FAIR":[118],"innovative":[120],"more":[124],"efficient,":[125],"integrated":[126],"collaborative":[128],"way.":[129]},"counts_by_year":[],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2023-09-26T00:00:00"}