{"id":"https://openalex.org/W2795084201","doi":"https://doi.org/10.1186/s13015-019-0148-5","title":"Prefix-free parsing for building big BWTs","display_name":"Prefix-free parsing for building big BWTs","publication_year":2019,"publication_date":"2019-05-24","ids":{"openalex":"https://openalex.org/W2795084201","doi":"https://doi.org/10.1186/s13015-019-0148-5","mag":"2795084201","pmid":"https://pubmed.ncbi.nlm.nih.gov/31149025"},"language":"en","primary_location":{"id":"doi:10.1186/s13015-019-0148-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-019-0148-5","pdf_url":"https://almob.biomedcentral.com/track/pdf/10.1186/s13015-019-0148-5","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"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 for Molecular Biology","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://almob.biomedcentral.com/track/pdf/10.1186/s13015-019-0148-5","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021635660","display_name":"Christina Boucher","orcid":"https://orcid.org/0000-0001-9509-9725"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Christina Boucher","raw_affiliation_strings":["CISE, University of Florida, Gainesville, FL USA","University of Florida, Gainesville, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CISE, University of Florida, Gainesville, FL USA","institution_ids":["https://openalex.org/I33213144"]},{"raw_affiliation_string":"University of Florida, Gainesville, United States","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013172801","display_name":"Travis Gagie","orcid":"https://orcid.org/0000-0003-3689-327X"},"institutions":[{"id":"https://openalex.org/I911713783","display_name":"Universidad Diego Portales","ror":"https://ror.org/03gtdcg60","country_code":"CL","type":"education","lineage":["https://openalex.org/I911713783"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Travis Gagie","raw_affiliation_strings":["CeBiB, Santiago, Chile","EIT, Diego Portales University, Santiago, Chile","Diego Portales University, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CeBiB, Santiago, Chile","institution_ids":[]},{"raw_affiliation_string":"EIT, Diego Portales University, Santiago, Chile","institution_ids":["https://openalex.org/I911713783"]},{"raw_affiliation_string":"Diego Portales University, Santiago, Chile","institution_ids":["https://openalex.org/I911713783"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083575259","display_name":"Alan Kuhnle","orcid":"https://orcid.org/0000-0001-6506-1902"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alan Kuhnle","raw_affiliation_strings":["CISE, University of Florida, Gainesville, FL USA","Informatics Institute, Gainesville, FL USA","University of Florida, Gainesville, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CISE, University of Florida, Gainesville, FL USA","institution_ids":["https://openalex.org/I33213144"]},{"raw_affiliation_string":"Informatics Institute, Gainesville, FL USA","institution_ids":[]},{"raw_affiliation_string":"University of Florida, Gainesville, United States","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Ben Langmead","orcid":null},"institutions":[{"id":"https://openalex.org/I123338534","display_name":"Universit\u00e0 degli Studi del Piemonte Orientale \u201cAmedeo Avogadro\u201d","ror":"https://ror.org/04387x656","country_code":"IT","type":"education","lineage":["https://openalex.org/I123338534"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["IT","US"],"is_corresponding":false,"raw_author_name":"Ben Langmead","raw_affiliation_strings":["Johns Hopkins University, Baltimore, MD, USA","Universit\u00e0 degli Studi del Piemonte Orientale \u201cAmedeo Avogadro\u201d, Vercelli, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins University, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948"]},{"raw_affiliation_string":"Universit\u00e0 degli Studi del Piemonte Orientale \u201cAmedeo Avogadro\u201d, Vercelli, Italy","institution_ids":["https://openalex.org/I123338534"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Giovanni Manzini","orcid":null},"institutions":[{"id":"https://openalex.org/I123338534","display_name":"Universit\u00e0 degli Studi del Piemonte Orientale \u201cAmedeo Avogadro\u201d","ror":"https://ror.org/04387x656","country_code":"IT","type":"education","lineage":["https://openalex.org/I123338534"]},{"id":"https://openalex.org/I4210130157","display_name":"Institute of Informatics and Telematics","ror":"https://ror.org/02gdcn153","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210130157","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giovanni Manzini","raw_affiliation_strings":["IIT, CNR, Pisa, Italy","University of Eastern Piedmont, Alessandria, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"IIT, CNR, Pisa, Italy","institution_ids":["https://openalex.org/I4210130157"]},{"raw_affiliation_string":"University of Eastern Piedmont, Alessandria, Italy","institution_ids":["https://openalex.org/I123338534"]}]},{"author_position":"last","author":{"id":null,"display_name":"Taher Mun","orcid":null},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Taher Mun","raw_affiliation_strings":["Johns Hopkins University, Baltimore, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins University, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5021635660"],"corresponding_institution_ids":["https://openalex.org/I33213144"],"apc_list":{"value":2290,"currency":"USD","value_usd":2290},"apc_paid":{"value":2290,"currency":"USD","value_usd":2290},"fwci":0.635,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.76199003,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"14","issue":"1","first_page":"13","last_page":"13"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9997000098228455,"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"}},"topics":[{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9997000098228455,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9979000091552734,"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/T12326","display_name":"Network Packet Processing and Optimization","score":0.979200005531311,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7731302380561829},{"id":"https://openalex.org/keywords/parsing","display_name":"Parsing","score":0.7451579570770264},{"id":"https://openalex.org/keywords/terabyte","display_name":"Terabyte","score":0.6840698719024658},{"id":"https://openalex.org/keywords/prefix","display_name":"Prefix","score":0.5785263180732727},{"id":"https://openalex.org/keywords/preprocessor","display_name":"Preprocessor","score":0.5315378308296204},{"id":"https://openalex.org/keywords/property","display_name":"Property (philosophy)","score":0.466714084148407},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.33534854650497437},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.24548736214637756},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.138150155544281}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7731302380561829},{"id":"https://openalex.org/C186644900","wikidata":"https://www.wikidata.org/wiki/Q194152","display_name":"Parsing","level":2,"score":0.7451579570770264},{"id":"https://openalex.org/C199683683","wikidata":"https://www.wikidata.org/wiki/Q8799","display_name":"Terabyte","level":2,"score":0.6840698719024658},{"id":"https://openalex.org/C141603448","wikidata":"https://www.wikidata.org/wiki/Q134830","display_name":"Prefix","level":2,"score":0.5785263180732727},{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.5315378308296204},{"id":"https://openalex.org/C189950617","wikidata":"https://www.wikidata.org/wiki/Q937228","display_name":"Property (philosophy)","level":2,"score":0.466714084148407},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.33534854650497437},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.24548736214637756},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.138150155544281},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":11,"locations":[{"id":"doi:10.1186/s13015-019-0148-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-019-0148-5","pdf_url":"https://almob.biomedcentral.com/track/pdf/10.1186/s13015-019-0148-5","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"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 for Molecular Biology","raw_type":"journal-article"},{"id":"doi:10.1101/472399","is_oa":true,"landing_page_url":"https://doi.org/10.1101/472399","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2018/11/19/472399.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmid:31149025","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31149025","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":"Algorithms for molecular biology : AMB","raw_type":null},{"id":"pmh:oai:arXiv.org:1803.11245","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1803.11245","pdf_url":"https://arxiv.org/pdf/1803.11245","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},{"id":"mag:2795084201","is_oa":true,"landing_page_url":"http://export.arxiv.org/pdf/1803.11245","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"pmh:oai:arpi.unipi.it:11568/1097656","is_oa":false,"landing_page_url":"http://hdl.handle.net/11568/1097656","pdf_url":null,"source":{"id":"https://openalex.org/S4377196265","display_name":"CINECA IRIS Institutial research information system (University of Pisa)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I108290504","host_organization_name":"University of Pisa","host_organization_lineage":["https://openalex.org/I108290504"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:doaj.org/article:0740dbfd57f5443c975843203a7b99e9","is_oa":true,"landing_page_url":"https://doaj.org/article/0740dbfd57f5443c975843203a7b99e9","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 for Molecular Biology, Vol 14, Iss 1, Pp 1-15 (2019)","raw_type":"article"},{"id":"pmh:oai:drops-oai.dagstuhl.de:9304","is_oa":true,"landing_page_url":"https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2018.2","pdf_url":null,"source":{"id":"https://openalex.org/S4377196569","display_name":"DROPS (Schloss Dagstuhl \u2013 Leibniz Center for Informatics)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2799853480","host_organization_name":"Schloss Dagstuhl \u2013 Leibniz Center for Informatics","host_organization_lineage":["https://openalex.org/I2799853480"],"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":"","raw_type":"InProceedings"},{"id":"pmh:oai:pubmedcentral.nih.gov:6534911","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6534911","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Algorithms Mol Biol","raw_type":"Text"},{"id":"doi:10.48550/arxiv.1803.11245","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.1803.11245","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"},{"id":"doi:10.4230/lipics.wabi.2018.2","is_oa":true,"landing_page_url":"https://doi.org/10.4230/lipics.wabi.2018.2","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"ConferencePaper"}],"best_oa_location":{"id":"doi:10.1186/s13015-019-0148-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-019-0148-5","pdf_url":"https://almob.biomedcentral.com/track/pdf/10.1186/s13015-019-0148-5","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"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 for Molecular Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.49000000953674316,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G2177457621","display_name":"Developing Computational Methods for Surveillance of Antimicrobial Resistant Agents","funder_award_id":"1r01ai141810-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2460779857","display_name":null,"funder_award_id":"IIS 1618814","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2672260006","display_name":"III: Small: Collaborative Research: A Scalable and Efficient Optical Map Assembler","funder_award_id":"1618814","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4636870354","display_name":null,"funder_award_id":"1R01AI141810-01","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320310009","display_name":"University of Florida","ror":"https://ror.org/02y3ad647"},{"id":"https://openalex.org/F4320321394","display_name":"Aalto-Yliopisto","ror":"https://ror.org/020hwjq30"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W1962019683","https://openalex.org/W1977174119","https://openalex.org/W2011699809","https://openalex.org/W2097341408","https://openalex.org/W2104549677","https://openalex.org/W2124985265","https://openalex.org/W2159647614","https://openalex.org/W2170551349","https://openalex.org/W2263875137","https://openalex.org/W2531153203","https://openalex.org/W2564333746","https://openalex.org/W2604363154","https://openalex.org/W2612224663","https://openalex.org/W2799324424","https://openalex.org/W2963160145","https://openalex.org/W4230945265","https://openalex.org/W4247053599"],"related_works":["https://openalex.org/W2946874282","https://openalex.org/W2951332226","https://openalex.org/W2051511420","https://openalex.org/W3101055426","https://openalex.org/W9498632","https://openalex.org/W2485439294","https://openalex.org/W1347185","https://openalex.org/W3177261232","https://openalex.org/W2804661832","https://openalex.org/W2736180370","https://openalex.org/W1561551659","https://openalex.org/W2949666913","https://openalex.org/W3103359476","https://openalex.org/W3082895222","https://openalex.org/W2004506767","https://openalex.org/W2949429258","https://openalex.org/W2890728849","https://openalex.org/W2949858479","https://openalex.org/W1499032625","https://openalex.org/W2809499789"],"abstract_inverted_index":{"Abstract":[0],"High-throughput":[1],"sequencing":[2],"technologies":[3],"have":[4],"led":[5],"to":[6,26,54,77,120,175],"explosive":[7],"growth":[8],"of":[9,13,19,31,43,58,100,108,185,195,219],"genomic":[10,45],"databases;":[11],"one":[12],"which":[14,63],"will":[15],"soon":[16],"reach":[17],"hundreds":[18],"terabytes.":[20],"For":[21],"many":[22,42,65],"applications":[23],"we":[24,71,160,166,199],"want":[25],"build":[27,168,201],"and":[28,89,96,115,124,134,143,179],"store":[29],"indexes":[30,37],"these":[32,44],"databases":[33,46],"but":[34],"constructing":[35],"such":[36],"is":[38,155],"a":[39,73,84,93,97,148,202],"challenge.":[40],"Fortunately,":[41],"are":[47,136],"highly-repetitive\u2014a":[48],"characteristic":[49],"that":[50,82,105,132,162,198],"can":[51,110,145,167,200],"be":[52,111],"exploited":[53],"ease":[55],"the":[56,59,103,106],"computation":[57],"Burrows-Wheeler":[60],"Transform":[61],"(BWT),":[62],"underlies":[64],"popular":[66],"indexes.":[67],"In":[68,158],"this":[69],"paper,":[70],"introduce":[72],"preprocessing":[74],"algorithm,":[75],"referred":[76],"as":[78,87],"prefix-free":[79,164],"parsing":[80,165],",":[81],"takes":[83],"text":[85],"T":[86,101,109,127,140,154],"input,":[88],"in":[90,141,147,189,211],"one-pass":[91],"generates":[92],"dictionary":[94],"D":[95,114,133],"parse":[98],"P":[99,116,135],"with":[102,163],"property":[104],"BWT":[107],"constructed":[112],"from":[113],"using":[117,192,215],"workspace":[118],"proportional":[119],"their":[121],"total":[122],"size":[123],"O":[125],"(|":[126],"|)-time.":[128],"Our":[129],"experiments":[130],"show":[131,161],"significantly":[137],"smaller":[138],"than":[139],"practice,":[142],"thus,":[144],"fit":[146],"reasonable":[149],"internal":[150],"memory":[151,196,220],"even":[152],"when":[153],"very":[156],"large.":[157],"particular,":[159],"an":[169],"131-megabyte":[170],"run-length":[171],"compressed":[172],"FM-index":[173],"(restricted":[174],"support":[176],"only":[177],"counting":[178],"not":[180],"locating)":[181],"for":[182,206],"1000":[183,207],"copies":[184],"human":[186],"chromosome":[187],"19":[188],"2":[190],"hours":[191,214],"21":[193],"gigabytes":[194],"suggesting":[197],"6.73":[203],"gigabyte":[204],"index":[205],"complete":[208],"human-genome":[209],"haplotypes":[210],"approximately":[212],"102":[213],"about":[216],"1":[217],"terabyte":[218]},"counts_by_year":[{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
