{"id":"https://openalex.org/W2782701038","doi":"https://doi.org/10.3390/a11010003","title":"Analytic Combinatorics for Computing Seeding Probabilities","display_name":"Analytic Combinatorics for Computing Seeding Probabilities","publication_year":2018,"publication_date":"2018-01-10","ids":{"openalex":"https://openalex.org/W2782701038","doi":"https://doi.org/10.3390/a11010003","mag":"2782701038"},"language":"en","primary_location":{"id":"doi:10.3390/a11010003","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a11010003","pdf_url":"https://www.mdpi.com/1999-4893/11/1/3/pdf?version=1655189495","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/1999-4893/11/1/3/pdf?version=1655189495","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5045577595","display_name":"Guillaume J. Filion","orcid":"https://orcid.org/0000-0002-3473-1632"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Guillaume Filion","raw_affiliation_strings":["Department of Biological Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada"],"raw_orcid":"https://orcid.org/0000-0002-3473-1632","affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada","institution_ids":["https://openalex.org/I185261750"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5045577595"],"corresponding_institution_ids":["https://openalex.org/I185261750"],"apc_list":{"value":1600,"currency":"CHF","value_usd":1782},"apc_paid":{"value":1600,"currency":"CHF","value_usd":1782},"fwci":0.165,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.46711257,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"11","issue":"1","first_page":"3","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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":0.9997000098228455,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9973999857902527,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/heuristics","display_name":"Heuristics","score":0.7731412649154663},{"id":"https://openalex.org/keywords/seeding","display_name":"Seeding","score":0.7193643450737},{"id":"https://openalex.org/keywords/heuristic","display_name":"Heuristic","score":0.6863770484924316},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6077852249145508},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5817732810974121},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5592454075813293},{"id":"https://openalex.org/keywords/estimator","display_name":"Estimator","score":0.5584539771080017},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5286094546318054},{"id":"https://openalex.org/keywords/simple","display_name":"Simple (philosophy)","score":0.5257212519645691},{"id":"https://openalex.org/keywords/generating-function","display_name":"Generating function","score":0.52068030834198},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.44392669200897217},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.4212706983089447},{"id":"https://openalex.org/keywords/enumerative-combinatorics","display_name":"Enumerative combinatorics","score":0.4113995134830475},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.37881046533584595},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3574328124523163},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.3453049063682556},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.24421778321266174},{"id":"https://openalex.org/keywords/discrete-mathematics","display_name":"Discrete mathematics","score":0.23221272230148315},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.11311772465705872}],"concepts":[{"id":"https://openalex.org/C127705205","wikidata":"https://www.wikidata.org/wiki/Q5748245","display_name":"Heuristics","level":2,"score":0.7731412649154663},{"id":"https://openalex.org/C36248471","wikidata":"https://www.wikidata.org/wiki/Q7445669","display_name":"Seeding","level":2,"score":0.7193643450737},{"id":"https://openalex.org/C173801870","wikidata":"https://www.wikidata.org/wiki/Q201413","display_name":"Heuristic","level":2,"score":0.6863770484924316},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6077852249145508},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5817732810974121},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5592454075813293},{"id":"https://openalex.org/C185429906","wikidata":"https://www.wikidata.org/wiki/Q1130160","display_name":"Estimator","level":2,"score":0.5584539771080017},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5286094546318054},{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.5257212519645691},{"id":"https://openalex.org/C204911207","wikidata":"https://www.wikidata.org/wiki/Q860609","display_name":"Generating function","level":2,"score":0.52068030834198},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.44392669200897217},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.4212706983089447},{"id":"https://openalex.org/C112497148","wikidata":"https://www.wikidata.org/wiki/Q336787","display_name":"Enumerative combinatorics","level":2,"score":0.4113995134830475},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.37881046533584595},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3574328124523163},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.3453049063682556},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.24421778321266174},{"id":"https://openalex.org/C118615104","wikidata":"https://www.wikidata.org/wiki/Q121416","display_name":"Discrete mathematics","level":1,"score":0.23221272230148315},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.11311772465705872},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C146978453","wikidata":"https://www.wikidata.org/wiki/Q3798668","display_name":"Aerospace engineering","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.3390/a11010003","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a11010003","pdf_url":"https://www.mdpi.com/1999-4893/11/1/3/pdf?version=1655189495","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:recercat.cat:2072/351125","is_oa":true,"landing_page_url":"http://hdl.handle.net/10230/36693","pdf_url":null,"source":{"id":"https://openalex.org/S4306402147","display_name":"RECERCAT (Consorci de Serveis Universitaris de Catalunya)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210090028","host_organization_name":"Consorci de Serveis Universitaris de Catalunya","host_organization_lineage":["https://openalex.org/I4210090028"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:utoronto.scholaris.ca:1807/121941","is_oa":true,"landing_page_url":"http://hdl.handle.net/1807/121941","pdf_url":"https://utoronto.scholaris.ca/bitstreams/842357fc-ceac-4ae9-9025-ad29b06f5819/download","source":{"id":"https://openalex.org/S4306400261","display_name":"TSpace (University of Toronto)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I185261750","host_organization_name":"University of Toronto","host_organization_lineage":["https://openalex.org/I185261750"],"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":null,"raw_type":"Article"},{"id":"pmh:oai:doaj.org/article:a0c74884380e4268918cf274a45b7b75","is_oa":false,"landing_page_url":"https://doaj.org/article/a0c74884380e4268918cf274a45b7b75","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":"Algorithms, Vol 11, Iss 1, p 3 (2018)","raw_type":"article"},{"id":"pmh:oai:mdpi.com:/1999-4893/11/1/3/","is_oa":true,"landing_page_url":"https://dx.doi.org/10.3390/a11010003","pdf_url":null,"source":{"id":"https://openalex.org/S4306400947","display_name":"MDPI (MDPI AG)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210097602","host_organization_name":"Multidisciplinary Digital Publishing Institute (Switzerland)","host_organization_lineage":["https://openalex.org/I4210097602"],"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":"Algorithms; Volume 11; Issue 1; Pages: 3","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3390/a11010003","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a11010003","pdf_url":"https://www.mdpi.com/1999-4893/11/1/3/pdf?version=1655189495","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":[],"funders":[{"id":"https://openalex.org/F4320315803","display_name":"Centres de Recerca de Catalunya","ror":null},{"id":"https://openalex.org/F4320321505","display_name":"Generalitat de Catalunya","ror":"https://ror.org/01bg62x04"},{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2782701038.pdf","grobid_xml":"https://content.openalex.org/works/W2782701038.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W186403072","https://openalex.org/W758484163","https://openalex.org/W1577822803","https://openalex.org/W1759861793","https://openalex.org/W1965998064","https://openalex.org/W2005830269","https://openalex.org/W2018919817","https://openalex.org/W2018983027","https://openalex.org/W2045390532","https://openalex.org/W2050396985","https://openalex.org/W2055043387","https://openalex.org/W2087316471","https://openalex.org/W2087464200","https://openalex.org/W2093931624","https://openalex.org/W2094519647","https://openalex.org/W2103441770","https://openalex.org/W2124985265","https://openalex.org/W2137759177","https://openalex.org/W2158322625","https://openalex.org/W2765960175","https://openalex.org/W2963328195","https://openalex.org/W4229814660","https://openalex.org/W4245668478","https://openalex.org/W4298365428"],"related_works":["https://openalex.org/W2165127677","https://openalex.org/W2140318223","https://openalex.org/W3143937874","https://openalex.org/W2774921197","https://openalex.org/W2003480636","https://openalex.org/W2981849678","https://openalex.org/W2819137623","https://openalex.org/W4239501324","https://openalex.org/W2020145858","https://openalex.org/W2782701038"],"abstract_inverted_index":{"Seeding":[0],"heuristics":[1],"are":[2,17,22,165],"the":[3,26,34,49,73,89,106,111,114,132,146,150,163],"most":[4,18],"widely":[5,35],"used":[6,36,123],"strategies":[7,16,55,176],"to":[8,47,67,81,124,130,141,181],"speed":[9],"up":[10,126],"sequence":[11],"alignment":[12],"in":[13,167,186],"bioinformatics.":[14,187],"Such":[15],"successful":[19],"if":[20],"they":[21],"calibrated,":[23],"so":[24,44],"that":[25,162],"speed-versus-accuracy":[27],"trade-off":[28],"can":[29,120],"be":[30,122],"properly":[31],"tuned.":[32],"In":[33],"case":[37],"of":[38,52,58,75,86,108,113,145,149,156,184],"read":[39],"mapping,":[40],"it":[41],"has":[42],"been":[43],"far":[45],"impossible":[46],"predict":[48],"success":[50,147],"rate":[51,148],"competing":[53],"seeding":[54,90,151],"for":[56],"lack":[57],"a":[59,83,97,127],"theoretical":[60],"framework.":[61],"Here,":[62],"we":[63,160],"present":[64],"an":[65],"approach":[66,140],"estimate":[68],"such":[69],"quantities":[70],"based":[71,177],"on":[72,178],"theory":[74],"analytic":[76,179],"combinatorics.":[77],"The":[78,117],"strategy":[79],"is":[80],"specify":[82],"combinatorial":[84],"construction":[85],"reads":[87],"where":[88],"heuristic":[91,152],"fails,":[92],"translate":[93],"this":[94,139,172],"specification":[95],"into":[96],"generating":[98,115,118],"function":[99,119],"using":[100],"formal":[101],"rules,":[102],"and":[103,159],"finally":[104],"extract":[105],"probabilities":[107,133,183],"interest":[109,185],"from":[110],"singularities":[112],"function.":[116],"also":[121],"set":[125],"simple":[128,143],"recurrence":[129],"compute":[131,182],"with":[134],"greater":[135],"precision.":[136],"We":[137],"use":[138],"construct":[142],"estimators":[144],"under":[153],"different":[154],"types":[155],"sequencing":[157],"errors,":[158],"show":[161],"estimates":[164],"accurate":[166],"practical":[168],"situations.":[169],"More":[170],"generally,":[171],"work":[173],"shows":[174],"novel":[175],"combinatorics":[180]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
