{"id":"https://openalex.org/W2161784463","doi":"https://doi.org/10.1093/bioinformatics/bts664","title":"VAGUE: a graphical user interface for the Velvet assembler","display_name":"VAGUE: a graphical user interface for the Velvet assembler","publication_year":2012,"publication_date":"2012-11-17","ids":{"openalex":"https://openalex.org/W2161784463","doi":"https://doi.org/10.1093/bioinformatics/bts664","mag":"2161784463","pmid":"https://pubmed.ncbi.nlm.nih.gov/23162059"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts664","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts664","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006723625","display_name":"David Powell","orcid":"https://orcid.org/0000-0002-6639-6250"},"institutions":[{"id":"https://openalex.org/I347366330","display_name":"Melbourne Bioinformatics","ror":"https://ror.org/05gkzhv48","country_code":"AU","type":"education","lineage":["https://openalex.org/I347366330"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"David R. Powell","raw_affiliation_strings":["1 Victorian Bioinformatics Consortium, Monash University, Clayton 3800, Australia and 2Life Sciences Computation Centre, Victorian Life Sciences Computation Initiative, Parkville 3053, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Victorian Bioinformatics Consortium, Monash University, Clayton 3800, Australia and 2Life Sciences Computation Centre, Victorian Life Sciences Computation Initiative, Parkville 3053, Australia","institution_ids":["https://openalex.org/I347366330","https://openalex.org/I56590836"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088404965","display_name":"Torsten Seemann","orcid":"https://orcid.org/0000-0001-6046-610X"},"institutions":[{"id":"https://openalex.org/I347366330","display_name":"Melbourne Bioinformatics","ror":"https://ror.org/05gkzhv48","country_code":"AU","type":"education","lineage":["https://openalex.org/I347366330"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Torsten Seemann","raw_affiliation_strings":["1 Victorian Bioinformatics Consortium, Monash University, Clayton 3800, Australia and 2Life Sciences Computation Centre, Victorian Life Sciences Computation Initiative, Parkville 3053, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Victorian Bioinformatics Consortium, Monash University, Clayton 3800, Australia and 2Life Sciences Computation Centre, Victorian Life Sciences Computation Initiative, Parkville 3053, Australia","institution_ids":["https://openalex.org/I347366330","https://openalex.org/I56590836"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5088404965"],"corresponding_institution_ids":["https://openalex.org/I347366330","https://openalex.org/I56590836"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6717,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.69615288,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"29","issue":"2","first_page":"264","last_page":"265"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9337000250816345,"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":0.9337000250816345,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.0142000000923872,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.013700000010430813,"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/velvet","display_name":"Velvet","score":0.9600963592529297},{"id":"https://openalex.org/keywords/unix","display_name":"Unix","score":0.8081306219100952},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.7695811986923218},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7601399421691895},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.6465556621551514},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5823630094528198},{"id":"https://openalex.org/keywords/open-source","display_name":"Open source","score":0.5150777697563171},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.5133659243583679},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.45582637190818787},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.4036198854446411},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3964962065219879},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.3699519634246826},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.35342320799827576}],"concepts":[{"id":"https://openalex.org/C2781456284","wikidata":"https://www.wikidata.org/wiki/Q2217862","display_name":"Velvet","level":2,"score":0.9600963592529297},{"id":"https://openalex.org/C112968700","wikidata":"https://www.wikidata.org/wiki/Q11368","display_name":"Unix","level":3,"score":0.8081306219100952},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.7695811986923218},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7601399421691895},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.6465556621551514},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5823630094528198},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.5150777697563171},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.5133659243583679},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.45582637190818787},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.4036198854446411},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3964962065219879},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.3699519634246826},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.35342320799827576},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"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},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bts664","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts664","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23162059","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23162059","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320974","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98"},{"id":"https://openalex.org/F4320322858","display_name":"State Government of Victoria","ror":"https://ror.org/02xvc5r05"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":4,"referenced_works":["https://openalex.org/W1927652072","https://openalex.org/W1982827785","https://openalex.org/W2160969485","https://openalex.org/W2167719367"],"related_works":["https://openalex.org/W3180179400","https://openalex.org/W2118366689","https://openalex.org/W2154998455","https://openalex.org/W2116888309","https://openalex.org/W2477652530","https://openalex.org/W2039055059","https://openalex.org/W2381088774","https://openalex.org/W963721989","https://openalex.org/W1547777009","https://openalex.org/W2183494409"],"abstract_inverted_index":{"SUMMARY:":[0],"Velvet":[1,29,52],"is":[2,13,89,100],"a":[3,58,72],"popular":[4],"open-source":[5,104],"de":[6],"novo":[7],"genome":[8],"assembly":[9,69],"software":[10],"tool,":[11],"which":[12],"run":[14],"from":[15,107],"the":[16,22,47,95],"Unix":[17],"command":[18,37],"line.":[19],"Most":[20],"of":[21,28,83],"problems":[23],"experienced":[24],"by":[25],"new":[26],"users":[27,82],"revolve":[30],"around":[31],"constructing":[32],"syntactically":[33],"and":[34,45,75,93],"semantically":[35],"correct":[36],"lines,":[38],"getting":[39],"input":[40],"files":[41],"into":[42],"acceptable":[43],"formats":[44],"assessing":[46],"output.":[48],"Here,":[49],"we":[50],"present":[51],"Assembler":[53],"Graphical":[54],"User":[55],"Environment":[56],"(VAGUE),":[57],"multi-platform":[59],"graphical":[60],"front-end":[61],"for":[62],"Velvet.":[63,84],"VAGUE":[64,88],"aims":[65],"to":[66,71,76],"make":[67],"sequence":[68],"accessible":[70],"wider":[73],"audience":[74],"facilitate":[77],"better":[78],"usage":[79],"amongst":[80],"existing":[81],"AVAILABILITY":[85],"AND":[86],"IMPLEMENTATION:":[87],"implemented":[90],"in":[91],"JRuby":[92],"targets":[94],"Java":[96],"Virtual":[97],"Machine.":[98],"It":[99],"available":[101],"under":[102],"an":[103],"GPLv2":[105],"licence":[106],"http://www.vicbioinformatics.com/.":[108],"CONTACT:":[109],"torsten.seemann@monash.edu.":[110]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":2},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
