{"id":"https://openalex.org/W4390347624","doi":"https://doi.org/10.3390/a17010015","title":"Computing RF Tree Distance over Succinct Representations","display_name":"Computing RF Tree Distance over Succinct Representations","publication_year":2023,"publication_date":"2023-12-28","ids":{"openalex":"https://openalex.org/W4390347624","doi":"https://doi.org/10.3390/a17010015"},"language":"en","primary_location":{"id":"doi:10.3390/a17010015","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a17010015","pdf_url":"https://www.mdpi.com/1999-4893/17/1/15/pdf?version=1703758567","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/1999-4893/17/1/15/pdf?version=1703758567","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113079416","display_name":"Ant\u00f3nio Pedro Branco","orcid":null},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]},{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I203847022","display_name":"Instituto Polit\u00e9cnico de Lisboa","ror":"https://ror.org/04ea70f07","country_code":"PT","type":"education","lineage":["https://openalex.org/I203847022"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Ant\u00f3nio Pedro Branco","raw_affiliation_strings":["Instituto Superior T\u00e9cnico, Universidade de Lisboa, 1049-001 Lisboa, Portugal","Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa (INESC-ID), 1000-029 Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Instituto Superior T\u00e9cnico, Universidade de Lisboa, 1049-001 Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103","https://openalex.org/I203847022"]},{"raw_affiliation_string":"Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa (INESC-ID), 1000-029 Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041077284","display_name":"C\u00e1tia Vaz","orcid":"https://orcid.org/0000-0001-6074-3074"},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]},{"id":"https://openalex.org/I203847022","display_name":"Instituto Polit\u00e9cnico de Lisboa","ror":"https://ror.org/04ea70f07","country_code":"PT","type":"education","lineage":["https://openalex.org/I203847022"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"C\u00e1tia Vaz","raw_affiliation_strings":["Instituto Superior de Engenharia de Lisboa, Instituto Polit\u00e9cnico de Lisboa, 1959-007 Lisboa, Portugal","Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa (INESC-ID), 1000-029 Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Instituto Superior de Engenharia de Lisboa, Instituto Polit\u00e9cnico de Lisboa, 1959-007 Lisboa, Portugal","institution_ids":["https://openalex.org/I203847022"]},{"raw_affiliation_string":"Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa (INESC-ID), 1000-029 Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110540557","display_name":"Alexandre P. Francisco","orcid":"https://orcid.org/0000-0003-4852-1641"},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]},{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I203847022","display_name":"Instituto Polit\u00e9cnico de Lisboa","ror":"https://ror.org/04ea70f07","country_code":"PT","type":"education","lineage":["https://openalex.org/I203847022"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Alexandre P. Francisco","raw_affiliation_strings":["Instituto Superior T\u00e9cnico, Universidade de Lisboa, 1049-001 Lisboa, Portugal","Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa (INESC-ID), 1000-029 Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Instituto Superior T\u00e9cnico, Universidade de Lisboa, 1049-001 Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103","https://openalex.org/I203847022"]},{"raw_affiliation_string":"Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa (INESC-ID), 1000-029 Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5041077284"],"corresponding_institution_ids":["https://openalex.org/I121345201","https://openalex.org/I203847022"],"apc_list":{"value":1400,"currency":"CHF","value_usd":1782},"apc_paid":{"value":1400,"currency":"CHF","value_usd":1782},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.11659078,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"17","issue":"1","first_page":"15","last_page":"15"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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":0.9998999834060669,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9919999837875366,"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/T11354","display_name":"Evolution and Paleontology Studies","score":0.9639000296592712,"subfield":{"id":"https://openalex.org/subfields/1911","display_name":"Paleontology"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.9218349456787109},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.6968980431556702},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.5986570715904236},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5349000692367554},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.533578097820282},{"id":"https://openalex.org/keywords/phylogenetic-network","display_name":"Phylogenetic network","score":0.46097269654273987},{"id":"https://openalex.org/keywords/tree-rearrangement","display_name":"Tree rearrangement","score":0.4402109682559967},{"id":"https://openalex.org/keywords/space","display_name":"Space (punctuation)","score":0.42219239473342896},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.39816945791244507},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3861967921257019},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3215080797672272},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.22288775444030762},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2146192193031311},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.08880358934402466},{"id":"https://openalex.org/keywords/paleontology","display_name":"Paleontology","score":0.07739436626434326}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.9218349456787109},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.6968980431556702},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.5986570715904236},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5349000692367554},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.533578097820282},{"id":"https://openalex.org/C26619641","wikidata":"https://www.wikidata.org/wiki/Q3142246","display_name":"Phylogenetic network","level":4,"score":0.46097269654273987},{"id":"https://openalex.org/C53208351","wikidata":"https://www.wikidata.org/wiki/Q7837630","display_name":"Tree rearrangement","level":4,"score":0.4402109682559967},{"id":"https://openalex.org/C2778572836","wikidata":"https://www.wikidata.org/wiki/Q380933","display_name":"Space (punctuation)","level":2,"score":0.42219239473342896},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.39816945791244507},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3861967921257019},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3215080797672272},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.22288775444030762},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2146192193031311},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.08880358934402466},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.07739436626434326},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.3390/a17010015","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a17010015","pdf_url":"https://www.mdpi.com/1999-4893/17/1/15/pdf?version=1703758567","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms","raw_type":"journal-article"},{"id":"pmh:oai:repositorio.ipl.pt:10400.21/17866","is_oa":true,"landing_page_url":"http://hdl.handle.net/10400.21/17866","pdf_url":"https://repositorio.ipl.pt/bitstream/10400.21/17866/1/Computing_CVaz.pdf","source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":"journal article"},{"id":"pmh:oai:doaj.org/article:61f5c156501e49bfaa7f65b40b4cc1a2","is_oa":true,"landing_page_url":"https://doaj.org/article/61f5c156501e49bfaa7f65b40b4cc1a2","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":"Algorithms, Vol 17, Iss 1, p 15 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3390/a17010015","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a17010015","pdf_url":"https://www.mdpi.com/1999-4893/17/1/15/pdf?version=1703758567","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2441341484","display_name":"Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa","funder_award_id":"UIDB/50021/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G6303935661","display_name":null,"funder_award_id":"IPL/IDI&CA2023/PhyloLearn_ISEL","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G6386882215","display_name":"Instituto de Engenharia de Sistemas e Computadores, Investiga\u00e7\u00e3o e Desenvolvimento em Lisboa","funder_award_id":"LA/P/0078/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G7245221707","display_name":null,"funder_award_id":"IPL/IDI&CA2023/PhyloLearn_ISEL","funder_id":"https://openalex.org/F4320331683","funder_display_name":"Instituto Polit\u00e9cnico de Lisboa"},{"id":"https://openalex.org/G8330140302","display_name":null,"funder_award_id":"951970","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"}],"funders":[{"id":"https://openalex.org/F4320331683","display_name":"Instituto Polit\u00e9cnico de Lisboa","ror":"https://ror.org/04ea70f07"},{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4390347624.pdf"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1514171102","https://openalex.org/W1843274134","https://openalex.org/W1962019683","https://openalex.org/W1970757586","https://openalex.org/W1982901388","https://openalex.org/W1996437477","https://openalex.org/W1999417916","https://openalex.org/W1999727705","https://openalex.org/W2005631842","https://openalex.org/W2007358765","https://openalex.org/W2044789562","https://openalex.org/W2049515965","https://openalex.org/W2060425093","https://openalex.org/W2085448729","https://openalex.org/W2113592912","https://openalex.org/W2143306786","https://openalex.org/W2147935317","https://openalex.org/W2768017947","https://openalex.org/W2884275680","https://openalex.org/W2993005136","https://openalex.org/W3034390492","https://openalex.org/W3038369633","https://openalex.org/W3104679409","https://openalex.org/W3210477677","https://openalex.org/W4210681352","https://openalex.org/W4226066396","https://openalex.org/W4247794781","https://openalex.org/W4254268221","https://openalex.org/W4254848882","https://openalex.org/W4379662611"],"related_works":["https://openalex.org/W85430217","https://openalex.org/W2607237371","https://openalex.org/W3088015816","https://openalex.org/W2800044728","https://openalex.org/W4287661213","https://openalex.org/W3106839334","https://openalex.org/W4205904230","https://openalex.org/W2363720861","https://openalex.org/W4205930990","https://openalex.org/W2362218761"],"abstract_inverted_index":{"There":[0],"are":[1,57,68,116,185],"several":[2,37],"tools":[3,34],"available":[4,40,201],"to":[5,41,75,164,187],"infer":[6],"phylogenetic":[7,43,63,112,114,166],"trees,":[8,44,83,167],"which":[9,95],"depict":[10],"the":[11,85,91,106,150,161],"evolutionary":[12],"relationships":[13],"among":[14],"biological":[15],"entities":[16],"such":[17],"as":[18,202],"viral":[19],"and":[20,94,102,108,139],"bacterial":[21],"strains":[22],"in":[23,29,99,198],"infectious":[24],"outbreaks":[25],"or":[26,66,79],"cancerous":[27],"cells":[28],"tumor":[30],"progression":[31],"trees.":[32,142],"These":[33],"rely":[35],"on":[36,172,178],"inference":[38],"methods":[39,52],"produce":[42],"with":[45,84,120],"resulting":[46],"trees":[47,64,115,169],"not":[48],"being":[49,88],"unique.":[50],"Thus,":[51],"for":[53],"comparing":[54],"phylogenies":[55],"that":[56,183],"capable":[58],"of":[59,90,111,122,124,149,176],"revealing":[60],"where":[61],"two":[62],"agree":[65],"differ":[67],"required.":[69],"An":[70],"approach":[71],"is":[72,200],"then":[73,145],"proposed":[74],"compute":[76],"a":[77],"similarity":[78],"dissimilarity":[80],"measure":[81],"between":[82],"Robinson\u2013Foulds":[86,151,162],"distance":[87,152],"one":[89],"most":[92],"used,":[93],"can":[96],"be":[97],"computed":[98],"linear":[100,190],"time":[101,191],"space.":[103,195],"Nevertheless,":[104],"given":[105],"large":[107,119],"increasing":[109],"volume":[110],"data,":[113],"becoming":[117],"very":[118],"hundreds":[121],"thousands":[123],"leaves.":[125,179],"In":[126],"this":[127],"context,":[128],"space":[129],"requirements":[130],"become":[131],"an":[132,146,203],"issue":[133],"both":[134],"while":[135,140,192],"computing":[136],"tree":[137,154],"distances":[138,163],"storing":[141],"We":[143],"propose":[144],"efficient":[147],"implementation":[148,158,197],"over":[153],"succinct":[155],"representations.":[156],"Our":[157,196],"also":[159],"generalizes":[160],"labelled":[165],"i.e.,":[168],"containing":[170],"labels":[171],"all":[173],"nodes,":[174],"instead":[175],"only":[177],"Experimental":[180],"results":[181],"show":[182],"we":[184],"able":[186],"still":[188],"achieve":[189],"requiring":[193],"less":[194],"C++":[199],"open-source":[204],"tool.":[205]},"counts_by_year":[],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
