{"id":"https://openalex.org/W2170964688","doi":"https://doi.org/10.1093/bioinformatics/btu531","title":"AliView: a fast and lightweight alignment viewer and editor for large datasets","display_name":"AliView: a fast and lightweight alignment viewer and editor for large datasets","publication_year":2014,"publication_date":"2014-08-05","ids":{"openalex":"https://openalex.org/W2170964688","doi":"https://doi.org/10.1093/bioinformatics/btu531","mag":"2170964688","pmid":"https://pubmed.ncbi.nlm.nih.gov/25095880"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu531","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu531","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/22/3276/48931299/bioinformatics_30_22_3276.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/22/3276/48931299/bioinformatics_30_22_3276.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075475813","display_name":"Anders Larsson","orcid":"https://orcid.org/0000-0002-2096-8102"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Anders Larsson","raw_affiliation_strings":["Systematic Biology, Department of Organismal Biology, Evolutionary Biology Centre, Uppsala University, Uppsala 75236, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Systematic Biology, Department of Organismal Biology, Evolutionary Biology Centre, Uppsala University, Uppsala 75236, Sweden","institution_ids":["https://openalex.org/I123387679"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5075475813"],"corresponding_institution_ids":["https://openalex.org/I123387679"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":32.2331,"has_fulltext":true,"cited_by_count":3889,"citation_normalized_percentile":{"value":0.99879178,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"30","issue":"22","first_page":"3276","last_page":"3278"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9776999950408936,"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":0.9776999950408936,"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":0.004900000058114529,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.0010999999940395355,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8371682167053223},{"id":"https://openalex.org/keywords/merge","display_name":"Merge (version control)","score":0.6758477687835693},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6463810801506042},{"id":"https://openalex.org/keywords/os-x","display_name":"OS X","score":0.6003322601318359},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.5477192401885986},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.5216936469078064},{"id":"https://openalex.org/keywords/mac-os","display_name":"Mac OS","score":0.497221976518631},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.4926174283027649},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.47097325325012207},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4598224461078644},{"id":"https://openalex.org/keywords/license","display_name":"License","score":0.44729524850845337},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.44526639580726624},{"id":"https://openalex.org/keywords/sort","display_name":"sort","score":0.43792280554771423},{"id":"https://openalex.org/keywords/mega","display_name":"Mega-","score":0.4313177466392517},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.41267552971839905},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3988785445690155},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.35582101345062256},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3413258194923401}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8371682167053223},{"id":"https://openalex.org/C197129107","wikidata":"https://www.wikidata.org/wiki/Q1921621","display_name":"Merge (version control)","level":2,"score":0.6758477687835693},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6463810801506042},{"id":"https://openalex.org/C515153823","wikidata":"https://www.wikidata.org/wiki/Q14116","display_name":"OS X","level":3,"score":0.6003322601318359},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.5477192401885986},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.5216936469078064},{"id":"https://openalex.org/C522133331","wikidata":"https://www.wikidata.org/wiki/Q43627","display_name":"Mac OS","level":3,"score":0.497221976518631},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.4926174283027649},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.47097325325012207},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4598224461078644},{"id":"https://openalex.org/C2780560020","wikidata":"https://www.wikidata.org/wiki/Q79719","display_name":"License","level":2,"score":0.44729524850845337},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.44526639580726624},{"id":"https://openalex.org/C88548561","wikidata":"https://www.wikidata.org/wiki/Q347599","display_name":"sort","level":2,"score":0.43792280554771423},{"id":"https://openalex.org/C2781078984","wikidata":"https://www.wikidata.org/wiki/Q107205","display_name":"Mega-","level":2,"score":0.4313177466392517},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.41267552971839905},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3988785445690155},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.35582101345062256},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3413258194923401},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","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/C1276947","wikidata":"https://www.wikidata.org/wiki/Q333","display_name":"Astronomy","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btu531","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu531","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/22/3276/48931299/bioinformatics_30_22_3276.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25095880","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25095880","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},{"id":"pmh:oai:pubmedcentral.nih.gov:4221126","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4221126","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.798.6643","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.798.6643","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/38/18/btu531.PMC4221126.pdf","raw_type":"text"},{"id":"pmh:oai:DiVA.org:uu-232231","is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-232231","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu531","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu531","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/22/3276/48931299/bioinformatics_30_22_3276.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321033","display_name":"Svenska Forskningsr\u00e5det Formas","ror":"https://ror.org/03pjs1y45"},{"id":"https://openalex.org/F4320322581","display_name":"Vetenskapsr\u00e5det","ror":"https://ror.org/03zttf063"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2170964688.pdf","grobid_xml":"https://content.openalex.org/works/W2170964688.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W2031611770","https://openalex.org/W2106888005","https://openalex.org/W2108234281","https://openalex.org/W2120772351","https://openalex.org/W2132926880","https://openalex.org/W2137015675","https://openalex.org/W2149531726","https://openalex.org/W2158392977","https://openalex.org/W2611511275"],"related_works":["https://openalex.org/W4376632749","https://openalex.org/W4377565316","https://openalex.org/W2796515132","https://openalex.org/W4292723171","https://openalex.org/W2114853012","https://openalex.org/W4200403781","https://openalex.org/W2116449318","https://openalex.org/W2951278111","https://openalex.org/W2790039689","https://openalex.org/W2170964688"],"abstract_inverted_index":{"SUMMARY:":[0],"AliView":[1,19,63,81],"is":[2,82,97,104],"an":[3,67],"alignment":[4,69],"viewer":[5],"and":[6,36,50,96,106,114,118],"editor":[7,70],"designed":[8],"to":[9,45],"meet":[10],"the":[11,26,56,88],"requirements":[12],"of":[13,22,55,60],"next-generation":[14],"sequencing":[15],"era":[16],"phylogenetic":[17],"datasets.":[18,62,77],"handles":[20],"alignments":[21],"unlimited":[23],"size":[24],"in":[25],"formats":[27],"most":[28],"commonly":[29],"used,":[30],"i.e.":[31],"FASTA,":[32],"Phylip,":[33],"Nexus,":[34],"Clustal":[35],"MSF.":[37],"The":[38,102],"intuitive":[39],"graphical":[40],"interface":[41],"makes":[42],"it":[43],"easy":[44],"inspect,":[46],"sort,":[47],"delete,":[48],"merge":[49],"realign":[51],"sequences":[52],"as":[53,66,73,75,84],"part":[54],"manual":[57],"filtering":[58],"process":[59],"large":[61,76],"also":[64],"works":[65],"easy-to-use":[68],"for":[71],"small":[72],"well":[74],"AVAILABILITY":[78],"AND":[79],"IMPLEMENTATION:":[80],"released":[83],"open-source":[85],"software":[86],"under":[87],"GNU":[89],"General":[90],"Public":[91],"License,":[92],"version":[93],"3.0":[94],"(GPLv3),":[95],"available":[98,121,131],"at":[99,122,132],"GitHub":[100],"(www.github.com/AliView).":[101],"program":[103],"cross-platform":[105],"extensively":[107],"tested":[108],"on":[109],"Linux,":[110],"Mac":[111],"OS":[112],"X":[113],"Windows":[115],"systems.":[116],"Downloads":[117],"help":[119],"are":[120,130],"http://ormbunkar.se/aliview":[123],"CONTACT:":[124],"anders.larsson@ebc.uu.se":[125],"SUPPLEMENTARY":[126],"INFORMATION:":[127],"Supplementary":[128],"data":[129],"Bioinformatics":[133],"online.":[134]},"counts_by_year":[{"year":2026,"cited_by_count":277},{"year":2025,"cited_by_count":552},{"year":2024,"cited_by_count":623},{"year":2023,"cited_by_count":511},{"year":2022,"cited_by_count":456},{"year":2021,"cited_by_count":441},{"year":2020,"cited_by_count":340},{"year":2019,"cited_by_count":244},{"year":2018,"cited_by_count":196},{"year":2017,"cited_by_count":130},{"year":2016,"cited_by_count":91},{"year":2015,"cited_by_count":26},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2025-10-10T00:00:00"}
