{"id":"https://openalex.org/W4399045168","doi":"https://doi.org/10.1186/s12859-024-05818-2","title":"SEDA 2024 update: enhancing the SEquence DAtaset builder for seamless integration into automated data analysis pipelines","display_name":"SEDA 2024 update: enhancing the SEquence DAtaset builder for seamless integration into automated data analysis pipelines","publication_year":2024,"publication_date":"2024-05-27","ids":{"openalex":"https://openalex.org/W4399045168","doi":"https://doi.org/10.1186/s12859-024-05818-2","pmid":"https://pubmed.ncbi.nlm.nih.gov/38802733"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-024-05818-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-024-05818-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05818-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05818-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5026022133","display_name":"Miguel Reboiro\u2010Jato","orcid":"https://orcid.org/0000-0001-8749-2703"},"institutions":[{"id":"https://openalex.org/I6289922","display_name":"Universidade de Vigo","ror":"https://ror.org/05rdf8595","country_code":"ES","type":"education","lineage":["https://openalex.org/I6289922"]},{"id":"https://openalex.org/I4210158352","display_name":"Servicio Gallego de Salud","ror":"https://ror.org/0591s4t67","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210158352"]},{"id":"https://openalex.org/I4210091478","display_name":"Galicia Sur Biomedical Foundation","ror":"https://ror.org/00jdfsf63","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210091478"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Miguel Reboiro-Jato","raw_affiliation_strings":["CINBIO, Department of Computer Science, ESEI-Escuela Superior de Ingenier\u00eda Inform\u00e1tica, Universidade de Vigo, 32004, Ourense, Spain","SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CINBIO, Department of Computer Science, ESEI-Escuela Superior de Ingenier\u00eda Inform\u00e1tica, Universidade de Vigo, 32004, Ourense, Spain","institution_ids":["https://openalex.org/I6289922"]},{"raw_affiliation_string":"SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain","institution_ids":["https://openalex.org/I4210091478","https://openalex.org/I4210158352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070394894","display_name":"Daniel P\u00e9rez-Rodr\u00edguez","orcid":"https://orcid.org/0000-0002-8110-3567"},"institutions":[{"id":"https://openalex.org/I4210148771","display_name":"Instituto de Investigaci\u00f3n Sanitaria de Santiago","ror":"https://ror.org/05n7xcf53","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210148771"]},{"id":"https://openalex.org/I4210096311","display_name":"Complejo Hospitalario Universitario de Santiago","ror":"https://ror.org/00mpdg388","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210096311"]},{"id":"https://openalex.org/I4210091478","display_name":"Galicia Sur Biomedical Foundation","ror":"https://ror.org/00jdfsf63","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210091478"]},{"id":"https://openalex.org/I2802353815","display_name":"University Hospital Complex Of Vigo","ror":"https://ror.org/01ybfxd46","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I2802353815","https://openalex.org/I4210158352"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Daniel P\u00e9rez-Rodr\u00edguez","raw_affiliation_strings":["NeuroEpigenetics Lab, Instituto de Investigaci\u00f3n Sanitaria de Santiago (IDIS), Complejo Hospitalario Universitario de Santiago, 15706, Santiago de Compostela, Spain","Translational Neuroscience Group, \u00c1rea Sanitaria de Vigo-Hospital \u00c1lvaro Cunqueiro, SERGAS-UVIGO, CIBERSAM-ISCIII, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NeuroEpigenetics Lab, Instituto de Investigaci\u00f3n Sanitaria de Santiago (IDIS), Complejo Hospitalario Universitario de Santiago, 15706, Santiago de Compostela, Spain","institution_ids":["https://openalex.org/I4210148771","https://openalex.org/I4210096311"]},{"raw_affiliation_string":"Translational Neuroscience Group, \u00c1rea Sanitaria de Vigo-Hospital \u00c1lvaro Cunqueiro, SERGAS-UVIGO, CIBERSAM-ISCIII, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain","institution_ids":["https://openalex.org/I2802353815","https://openalex.org/I4210091478"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100658416","display_name":"Miguel Silva","orcid":"https://orcid.org/0009-0008-6630-9939"},"institutions":[{"id":"https://openalex.org/I4210158352","display_name":"Servicio Gallego de Salud","ror":"https://ror.org/0591s4t67","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210158352"]},{"id":"https://openalex.org/I4210091478","display_name":"Galicia Sur Biomedical Foundation","ror":"https://ror.org/00jdfsf63","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210091478"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Miguel Jos\u00e9 Da Silva","raw_affiliation_strings":["SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain","institution_ids":["https://openalex.org/I4210091478","https://openalex.org/I4210158352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5098881326","display_name":"David Vila-Fern\u00e1ndez","orcid":null},"institutions":[{"id":"https://openalex.org/I4210158352","display_name":"Servicio Gallego de Salud","ror":"https://ror.org/0591s4t67","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210158352"]},{"id":"https://openalex.org/I4210091478","display_name":"Galicia Sur Biomedical Foundation","ror":"https://ror.org/00jdfsf63","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210091478"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"David Vila-Fern\u00e1ndez","raw_affiliation_strings":["SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain","institution_ids":["https://openalex.org/I4210091478","https://openalex.org/I4210158352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081065000","display_name":"Cristina P. Vieira","orcid":"https://orcid.org/0000-0002-7139-2107"},"institutions":[{"id":"https://openalex.org/I4210158732","display_name":"i3S - Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade, Universidade do Porto","ror":"https://ror.org/04wjk1035","country_code":"PT","type":"facility","lineage":["https://openalex.org/I182534213","https://openalex.org/I4210158732"]},{"id":"https://openalex.org/I4387153674","display_name":"Instituto de Biologia Molecular e Celular","ror":"https://ror.org/005dkht93","country_code":null,"type":"education","lineage":["https://openalex.org/I182534213","https://openalex.org/I4387153674"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Cristina P. Vieira","raw_affiliation_strings":["Instituto de Biologia Molecular e Celular (IBMC), Rua Alfredo Allen, 208, 4200-135, Porto, Portugal","Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade (I3S), Universidade do Porto, Rua Alfredo Allen, 208, 4200-135, Porto, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Instituto de Biologia Molecular e Celular (IBMC), Rua Alfredo Allen, 208, 4200-135, Porto, Portugal","institution_ids":["https://openalex.org/I4387153674"]},{"raw_affiliation_string":"Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade (I3S), Universidade do Porto, Rua Alfredo Allen, 208, 4200-135, Porto, Portugal","institution_ids":["https://openalex.org/I4210158732"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015978945","display_name":"Jorge Vieira","orcid":"https://orcid.org/0000-0001-7032-5220"},"institutions":[{"id":"https://openalex.org/I4387153674","display_name":"Instituto de Biologia Molecular e Celular","ror":"https://ror.org/005dkht93","country_code":null,"type":"education","lineage":["https://openalex.org/I182534213","https://openalex.org/I4387153674"]},{"id":"https://openalex.org/I4210158732","display_name":"i3S - Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade, Universidade do Porto","ror":"https://ror.org/04wjk1035","country_code":"PT","type":"facility","lineage":["https://openalex.org/I182534213","https://openalex.org/I4210158732"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Jorge Vieira","raw_affiliation_strings":["Instituto de Biologia Molecular e Celular (IBMC), Rua Alfredo Allen, 208, 4200-135, Porto, Portugal","Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade (I3S), Universidade do Porto, Rua Alfredo Allen, 208, 4200-135, Porto, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Instituto de Biologia Molecular e Celular (IBMC), Rua Alfredo Allen, 208, 4200-135, Porto, Portugal","institution_ids":["https://openalex.org/I4387153674"]},{"raw_affiliation_string":"Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade (I3S), Universidade do Porto, Rua Alfredo Allen, 208, 4200-135, Porto, Portugal","institution_ids":["https://openalex.org/I4210158732"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038155908","display_name":"Hugo L\u00f3pez-Fern\u00e1ndez","orcid":"https://orcid.org/0000-0002-6476-7206"},"institutions":[{"id":"https://openalex.org/I6289922","display_name":"Universidade de Vigo","ror":"https://ror.org/05rdf8595","country_code":"ES","type":"education","lineage":["https://openalex.org/I6289922"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Hugo L\u00f3pez-Fern\u00e1ndez","raw_affiliation_strings":["CINBIO, Department of Computer Science, ESEI-Escuela Superior de Ingenier\u00eda Inform\u00e1tica, Universidade de Vigo, 32004, Ourense, Spain. hlfernandez@uvigo.gal","SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain. hlfernandez@uvigo.gal","CINBIO, Department of Computer Science, ESEI-Escuela Superior de Ingenier\u00eda Inform\u00e1tica, Universidade de Vigo, 32004, Ourense, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CINBIO, Department of Computer Science, ESEI-Escuela Superior de Ingenier\u00eda Inform\u00e1tica, Universidade de Vigo, 32004, Ourense, Spain. hlfernandez@uvigo.gal","institution_ids":[]},{"raw_affiliation_string":"SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain. hlfernandez@uvigo.gal","institution_ids":[]},{"raw_affiliation_string":"CINBIO, Department of Computer Science, ESEI-Escuela Superior de Ingenier\u00eda Inform\u00e1tica, Universidade de Vigo, 32004, Ourense, Spain","institution_ids":["https://openalex.org/I6289922"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5026022133"],"corresponding_institution_ids":["https://openalex.org/I4210091478","https://openalex.org/I4210158352","https://openalex.org/I6289922"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.6554,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.6766668,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"25","issue":"1","first_page":"200","last_page":"200"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.16019999980926514,"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":0.16019999980926514,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.13120000064373016,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.13009999692440033,"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/computer-science","display_name":"Computer science","score":0.765783965587616},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.7414934039115906},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.6398066282272339},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5975112915039062},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.5882346630096436},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5846046805381775},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5356224775314331},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.521428108215332},{"id":"https://openalex.org/keywords/application-programming-interface","display_name":"Application programming interface","score":0.518168568611145},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.41105109453201294},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.4103944003582001},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.39562276005744934},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.38903799653053284},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1288928985595703}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.765783965587616},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.7414934039115906},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.6398066282272339},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5975112915039062},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.5882346630096436},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5846046805381775},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5356224775314331},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.521428108215332},{"id":"https://openalex.org/C99613125","wikidata":"https://www.wikidata.org/wiki/Q165194","display_name":"Application programming interface","level":2,"score":0.518168568611145},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.41105109453201294},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.4103944003582001},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.39562276005744934},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.38903799653053284},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1288928985595703},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","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":"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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-024-05818-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-024-05818-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05818-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38802733","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38802733","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11131258","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11131258","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11131258/pdf/12859_2024_Article_5818.pdf","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":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:ba9b47851a8b41a6b6c4b4f4579d89a0","is_oa":false,"landing_page_url":"https://doaj.org/article/ba9b47851a8b41a6b6c4b4f4579d89a0","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 25, Iss 1, Pp 1-9 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-024-05818-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-024-05818-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05818-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.41999998688697815,"display_name":"Responsible consumption and production","id":"https://metadata.un.org/sdg/12"}],"awards":[{"id":"https://openalex.org/G1496055848","display_name":null,"funder_award_id":"ED431C","funder_id":"https://openalex.org/F4320326655","funder_display_name":"Xunta de Galicia"},{"id":"https://openalex.org/G289314026","display_name":null,"funder_award_id":"ED431C 2022/03-GRC","funder_id":"https://openalex.org/F4320326655","funder_display_name":"Xunta de Galicia"},{"id":"https://openalex.org/G3515270197","display_name":null,"funder_award_id":"TR349V","funder_id":"https://openalex.org/F4320326655","funder_display_name":"Xunta de Galicia"},{"id":"https://openalex.org/G647086953","display_name":"Institute for Research and Innovation in Health","funder_award_id":"UIDB/04293/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"}],"funders":[{"id":"https://openalex.org/F4320326655","display_name":"Xunta de Galicia","ror":"https://ror.org/0181xnw06"},{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4399045168.pdf"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W24553703","https://openalex.org/W2040770546","https://openalex.org/W2110417468","https://openalex.org/W2146341019","https://openalex.org/W2529838505","https://openalex.org/W2605897695","https://openalex.org/W2891438086","https://openalex.org/W2901620691","https://openalex.org/W2938574745","https://openalex.org/W3109654795","https://openalex.org/W3175020463","https://openalex.org/W4255738661","https://openalex.org/W4383752005"],"related_works":["https://openalex.org/W4309247532","https://openalex.org/W3096946169","https://openalex.org/W4205801320","https://openalex.org/W2113128227","https://openalex.org/W2144610372","https://openalex.org/W4312114021","https://openalex.org/W4311938462","https://openalex.org/W2121840477","https://openalex.org/W2515936044","https://openalex.org/W3123068371"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,52,135],"initial":[2,29],"version":[3,30,137],"of":[4,16,31,47,58,66,141],"SEDA":[5,32,61,88],"assists":[6],"life":[7],"science":[8],"researchers":[9],"without":[10],"programming":[11],"skills":[12],"with":[13],"the":[14,28,45,56,59,64,99,139],"preparation":[15],"DNA":[17],"and":[18,41,81,94,123],"protein":[19],"sequence":[20],"FASTA":[21],"files":[22],"for":[23,37,78],"multiple":[24],"bioinformatics":[25],"applications.":[26],"However,":[27],"lacks":[33],"a":[34,67,76,110,120],"command-line":[35,69],"interface":[36],"more":[38],"advanced":[39],"users":[40],"does":[42],"not":[43],"allow":[44],"creation":[46],"automated":[48,79],"analysis":[49],"pipelines.":[50],"RESULTS:":[51],"present":[53],"paper":[54],"discusses":[55],"updates":[57],"new":[60,71],"release,":[62],"including":[63],"addition":[65],"complete":[68],"interface,":[70],"functionalities":[72],"like":[73],"gene":[74],"annotation,":[75],"framework":[77],"pipelines,":[80],"improved":[82],"integration":[83],"in":[84],"Linux":[85],"environments.":[86],"CONCLUSION:":[87],"is":[89,117,127,143],"an":[90],"open-source":[91],"Java":[92],"application":[93],"can":[95],"be":[96],"installed":[97],"using":[98],"different":[100],"distributions":[101],"available":[102],"(":[103,113,132],"https://www.sing-group.org/seda/download.html":[104],")":[105],"as":[106,108],"well":[107],"through":[109],"Docker":[111],"image":[112],"https://hub.docker.com/r/pegi3s/seda":[114],").":[115,134,150],"It":[116],"released":[118],"under":[119],"GPL-3.0":[121],"license,":[122],"its":[124],"source":[125],"code":[126],"publicly":[128],"accessible":[129],"on":[130],"GitHub":[131],"https://github.com/sing-group/seda":[133],"software":[136],"at":[138,145],"time":[140],"submission":[142],"archived":[144],"Zenodo":[146],"(version":[147],"v1.6.0,":[148],"http://doi.org/10.5281/zenodo.10201605":[149]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
