{"id":"https://openalex.org/W4322628713","doi":"https://doi.org/10.32614/rj-2023-019","title":"TreeSearch: Morphological Phylogenetic Analysis in R","display_name":"TreeSearch: Morphological Phylogenetic Analysis in R","publication_year":2023,"publication_date":"2023-02-10","ids":{"openalex":"https://openalex.org/W4322628713","doi":"https://doi.org/10.32614/rj-2023-019"},"language":"en","primary_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.32614/rj-2023-019","pdf_url":"https://journal.r-project.org/articles/RJ-2023-019/RJ-2023-019.pdf","source":{"id":"https://openalex.org/S2489169438","display_name":"The R Journal","issn_l":"2073-4859","issn":["2073-4859"],"is_oa":true,"is_in_doaj":false,"is_indexed_in_scopus":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},"type":"article","type_crossref":"journal-article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journal.r-project.org/articles/RJ-2023-019/RJ-2023-019.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088984252","display_name":"Martin R. Smith","orcid":"https://orcid.org/0000-0001-5660-1727"},"institutions":[{"id":"https://openalex.org/I190082696","display_name":"Durham University","ror":"https://ror.org/01v29qb04","country_code":"GB","type":"education","lineage":["https://openalex.org/I190082696"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Martin R. Smith","raw_affiliation_strings":["University of Durham"],"affiliations":[{"raw_affiliation_string":"University of Durham","institution_ids":["https://openalex.org/I190082696"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5088984252"],"corresponding_institution_ids":["https://openalex.org/I190082696"],"apc_list":null,"apc_paid":null,"fwci":7.696,"has_fulltext":true,"fulltext_origin":"pdf","cited_by_count":17,"citation_normalized_percentile":{"value":0.800372,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":"14","issue":"4","first_page":"305","last_page":"315"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10005","display_name":"Ecology and Vegetation Dynamics Studies","score":0.9918,"subfield":{"id":"https://openalex.org/subfields/2309","display_name":"Nature and Landscape Conservation"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10005","display_name":"Ecology and Vegetation Dynamics Studies","score":0.9918,"subfield":{"id":"https://openalex.org/subfields/2309","display_name":"Nature and Landscape Conservation"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11354","display_name":"Evolution and Paleontology Studies","score":0.9908,"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"}},{"id":"https://openalex.org/T10895","display_name":"Species Distribution and Climate Change","score":0.9875,"subfield":{"id":"https://openalex.org/subfields/2302","display_name":"Ecological Modeling"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/allowance","display_name":"Allowance (engineering)","score":0.6859367},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.5398803},{"id":"https://openalex.org/keywords/rigour","display_name":"Rigour","score":0.5024874},{"id":"https://openalex.org/keywords/maximum-parsimony","display_name":"Maximum parsimony","score":0.50004745}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.8064617},{"id":"https://openalex.org/C2780861071","wikidata":"https://www.wikidata.org/wiki/Q1062934","display_name":"Character (mathematics)","level":2,"score":0.74240875},{"id":"https://openalex.org/C2779268580","wikidata":"https://www.wikidata.org/wiki/Q3447087","display_name":"Allowance (engineering)","level":2,"score":0.6859367},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.5398803},{"id":"https://openalex.org/C71008984","wikidata":"https://www.wikidata.org/wiki/Q2890076","display_name":"Rigour","level":2,"score":0.5024874},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.50190425},{"id":"https://openalex.org/C22799545","wikidata":"https://www.wikidata.org/wiki/Q1805805","display_name":"Maximum parsimony","level":5,"score":0.50004745},{"id":"https://openalex.org/C71640776","wikidata":"https://www.wikidata.org/wiki/Q16521","display_name":"Taxon","level":2,"score":0.47094783},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38523668},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.35609454},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26181984},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2517016},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.18017906},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.105617374},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.084940046},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"is_oa":true,"landing_page_url":"https://doi.org/10.32614/rj-2023-019","pdf_url":"https://journal.r-project.org/articles/RJ-2023-019/RJ-2023-019.pdf","source":{"id":"https://openalex.org/S2489169438","display_name":"The R Journal","issn_l":"2073-4859","issn":["2073-4859"],"is_oa":true,"is_in_doaj":false,"is_indexed_in_scopus":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://durham-repository.worktribe.com/file/1190137/1/Published%20Journal%20Article","pdf_url":"https://durham-repository.worktribe.com/file/1190137/1/Published%20Journal%20Article","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://durham-repository.worktribe.com/output/1190137","pdf_url":"https://durham-repository.worktribe.com/preview/1190153/37143VoR.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true}],"best_oa_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.32614/rj-2023-019","pdf_url":"https://journal.r-project.org/articles/RJ-2023-019/RJ-2023-019.pdf","source":{"id":"https://openalex.org/S2489169438","display_name":"The R Journal","issn_l":"2073-4859","issn":["2073-4859"],"is_oa":true,"is_in_doaj":false,"is_indexed_in_scopus":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},"sustainable_development_goals":[],"grants":[],"datasets":[],"versions":[],"referenced_works_count":75,"referenced_works":["https://openalex.org/W108464071","https://openalex.org/W1483072991","https://openalex.org/W1532752689","https://openalex.org/W1540089290","https://openalex.org/W1973899373","https://openalex.org/W1977556410","https://openalex.org/W1977694535","https://openalex.org/W2012841587","https://openalex.org/W2021399907","https://openalex.org/W2034839449","https://openalex.org/W2042617011","https://openalex.org/W2049003611","https://openalex.org/W2060425093","https://openalex.org/W2068535610","https://openalex.org/W2073459066","https://openalex.org/W2073499586","https://openalex.org/W2076315229","https://openalex.org/W2100412820","https://openalex.org/W2100437550","https://openalex.org/W2110826596","https://openalex.org/W2111303992","https://openalex.org/W2111618895","https://openalex.org/W2112431471","https://openalex.org/W2112620675","https://openalex.org/W2113611996","https://openalex.org/W2114055146","https://openalex.org/W2117801354","https://openalex.org/W2121547088","https://openalex.org/W2126763909","https://openalex.org/W2128436311","https://openalex.org/W2140933370","https://openalex.org/W2141276211","https://openalex.org/W2141807666","https://openalex.org/W2144345995","https://openalex.org/W2149557149","https://openalex.org/W2151233804","https://openalex.org/W2159593893","https://openalex.org/W2163892779","https://openalex.org/W2169616042","https://openalex.org/W2169659867","https://openalex.org/W2172243258","https://openalex.org/W2184489641","https://openalex.org/W2313677986","https://openalex.org/W2341660393","https://openalex.org/W2344833538","https://openalex.org/W2484051379","https://openalex.org/W2488484620","https://openalex.org/W2574460536","https://openalex.org/W2620620902","https://openalex.org/W2790622846","https://openalex.org/W2795505199","https://openalex.org/W2803941450","https://openalex.org/W2883251903","https://openalex.org/W2915036929","https://openalex.org/W2950734213","https://openalex.org/W2951577930","https://openalex.org/W2952759153","https://openalex.org/W3012780130","https://openalex.org/W3021936614","https://openalex.org/W3038369633","https://openalex.org/W3045212253","https://openalex.org/W3126299768","https://openalex.org/W3156848048","https://openalex.org/W3159010271","https://openalex.org/W3170398868","https://openalex.org/W3197074220","https://openalex.org/W3206761547","https://openalex.org/W4200013611","https://openalex.org/W4200051093","https://openalex.org/W4205883684","https://openalex.org/W4246672663","https://openalex.org/W4248312841","https://openalex.org/W4250329948","https://openalex.org/W4399521831","https://openalex.org/W4399638148"],"related_works":["https://openalex.org/W4300265711","https://openalex.org/W3215180053","https://openalex.org/W3146310663","https://openalex.org/W3144097773","https://openalex.org/W2963820820","https://openalex.org/W2963207658","https://openalex.org/W2520823390","https://openalex.org/W2375151634","https://openalex.org/W2090308851","https://openalex.org/W171301151"],"abstract_inverted_index":{"TreeSearch":[0],"is":[1,61],"an":[2,25],"R":[3],"package":[4,111],"for":[5,9,30],"phylogenetic":[6,128],"analysis,":[7,123],"optimized":[8],"discrete":[10],"character":[11,32,78],"data.":[12],"Tree":[13],"search":[14],"may":[15],"be":[16],"conducted":[17],"using":[18],"equal":[19],"or":[20],"implied":[21],"step":[22,119],"weights":[23],"with":[24,59],"explicit":[26],"(albeit":[27],"inexact)":[28],"allowance":[29],"inapplicable":[31],"entries,":[33],"avoiding":[34],"some":[35],"of":[36,71,76,92,98,120,127],"the":[37,69,96,110,125],"pitfalls":[38],"inherent":[39],"in":[40],"standard":[41],"parsimony":[42,45],"methods.":[43],"Profile":[44],"and":[46,80,89,100,124],"user-specified":[47],"optimality":[48],"criteria":[49],"are":[50],"supported.":[51],"A":[52],"graphical":[53],"interface,":[54],"which":[55],"requires":[56],"no":[57],"familiarity":[58],"R,":[60],"designed":[62],"to":[63,67,81,113],"help":[64],"a":[65],"user":[66],"improve":[68],"quality":[70],"datasets":[72],"through":[73],"critical":[74],"review":[75],"underpinning":[77],"codings;":[79],"obtain":[82],"additional":[83],"information":[84],"from":[85],"results":[86],"by":[87],"identifying":[88],"summarizing":[90],"clusters":[91],"similar":[93],"trees,":[94,99],"mapping":[95],"distribution":[97],"removing":[101],"'rogue'":[102],"taxa":[103],"that":[104],"obscure":[105],"underlying":[106],"relationships.":[107],"Taken":[108],"together,":[109],"aims":[112],"support":[114],"methodological":[115],"rigour":[116],"at":[117],"each":[118],"data":[121],"collection,":[122],"exploration":[126],"results.":[129]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W4322628713","counts_by_year":[{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":10},{"year":2017,"cited_by_count":1}],"updated_date":"2025-01-18T03:40:49.882672","created_date":"2023-03-01"}