{"id":"https://openalex.org/W2516970777","doi":"https://doi.org/10.1093/bioinformatics/btw543","title":"CSAM: Compressed SAM format","display_name":"CSAM: Compressed SAM format","publication_year":2016,"publication_date":"2016-08-18","ids":{"openalex":"https://openalex.org/W2516970777","doi":"https://doi.org/10.1093/bioinformatics/btw543","mag":"2516970777","pmid":"https://pubmed.ncbi.nlm.nih.gov/27540265"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw543","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw543","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3709/16920918/btw543.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":null,"license_id":null,"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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3709/16920918/btw543.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034485449","display_name":"Rodrigo C\u00e1novas","orcid":"https://orcid.org/0000-0003-3987-8884"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]},{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU","FR"],"is_corresponding":true,"raw_author_name":"Rodrigo C\u00e1novas","raw_affiliation_strings":["1L.I.R.M.M. and Institut Biologie Computationnelle, Universit\u00e9 de Montpellier, Montpellier Cedex 5, CNRS F-34392, France","2Department of Computing and Information Systems, The University of Melbourne, Victoria 3010, Australia"],"affiliations":[{"raw_affiliation_string":"1L.I.R.M.M. and Institut Biologie Computationnelle, Universit\u00e9 de Montpellier, Montpellier Cedex 5, CNRS F-34392, France","institution_ids":["https://openalex.org/I19894307","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"2Department of Computing and Information Systems, The University of Melbourne, Victoria 3010, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081861848","display_name":"Alistair Moffat","orcid":"https://orcid.org/0000-0002-6638-0232"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Alistair Moffat","raw_affiliation_strings":["2Department of Computing and Information Systems, The University of Melbourne, Victoria 3010, Australia"],"affiliations":[{"raw_affiliation_string":"2Department of Computing and Information Systems, The University of Melbourne, Victoria 3010, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014748363","display_name":"Andrew Turpin","orcid":"https://orcid.org/0000-0003-2559-8769"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Andrew Turpin","raw_affiliation_strings":["2Department of Computing and Information Systems, The University of Melbourne, Victoria 3010, Australia"],"affiliations":[{"raw_affiliation_string":"2Department of Computing and Information Systems, The University of Melbourne, Victoria 3010, Australia","institution_ids":["https://openalex.org/I165779595"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5034485449"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I165779595","https://openalex.org/I19894307"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.2151,"has_fulltext":false,"cited_by_count":14,"citation_normalized_percentile":{"value":0.90974384,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"32","issue":"24","first_page":"3709","last_page":"3716"},"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9943000078201294,"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/T11181","display_name":"Advanced Data Storage Technologies","score":0.993399977684021,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/lossless-compression","display_name":"Lossless compression","score":0.9330267906188965},{"id":"https://openalex.org/keywords/lossy-compression","display_name":"Lossy compression","score":0.8833746910095215},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8235124349594116},{"id":"https://openalex.org/keywords/data-compression","display_name":"Data compression","score":0.6510715484619141},{"id":"https://openalex.org/keywords/compression","display_name":"Compression (physics)","score":0.5273169875144958},{"id":"https://openalex.org/keywords/file-format","display_name":"File format","score":0.47787800431251526},{"id":"https://openalex.org/keywords/encoding","display_name":"Encoding (memory)","score":0.4550600051879883},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.331939160823822},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.32984989881515503},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.24597644805908203},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.21568208932876587},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1859385371208191}],"concepts":[{"id":"https://openalex.org/C81081738","wikidata":"https://www.wikidata.org/wiki/Q55542","display_name":"Lossless compression","level":3,"score":0.9330267906188965},{"id":"https://openalex.org/C165021410","wikidata":"https://www.wikidata.org/wiki/Q55564","display_name":"Lossy compression","level":2,"score":0.8833746910095215},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8235124349594116},{"id":"https://openalex.org/C78548338","wikidata":"https://www.wikidata.org/wiki/Q2493","display_name":"Data compression","level":2,"score":0.6510715484619141},{"id":"https://openalex.org/C180016635","wikidata":"https://www.wikidata.org/wiki/Q2712821","display_name":"Compression (physics)","level":2,"score":0.5273169875144958},{"id":"https://openalex.org/C97250363","wikidata":"https://www.wikidata.org/wiki/Q235557","display_name":"File format","level":2,"score":0.47787800431251526},{"id":"https://openalex.org/C125411270","wikidata":"https://www.wikidata.org/wiki/Q18653","display_name":"Encoding (memory)","level":2,"score":0.4550600051879883},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.331939160823822},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.32984989881515503},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.24597644805908203},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.21568208932876587},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1859385371208191},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0}],"mesh":[{"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":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044962","descriptor_name":"Data Compression","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D044962","descriptor_name":"Data Compression","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D044962","descriptor_name":"Data Compression","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":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btw543","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw543","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3709/16920918/btw543.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27540265","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27540265","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:HAL:lirmm-01951638v1","is_oa":true,"landing_page_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01951638","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"https://academic.oup.com/bioinformatics/article/32/24/3709/2525655","raw_type":"Journal articles"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/24/3709","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/24/3709","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw543","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw543","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3709/16920918/btw543.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":null,"license_id":null,"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/F4320315885","display_name":"Australian Government","ror":"https://ror.org/0314h5y94"},{"id":"https://openalex.org/F4320334704","display_name":"Australian Research Council","ror":"https://ror.org/05mmh0f86"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2516970777.pdf","grobid_xml":"https://content.openalex.org/works/W2516970777.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W657799361","https://openalex.org/W1531668109","https://openalex.org/W1964139840","https://openalex.org/W2010928148","https://openalex.org/W2042947822","https://openalex.org/W2058839892","https://openalex.org/W2066599825","https://openalex.org/W2103903744","https://openalex.org/W2108234281","https://openalex.org/W2109153336","https://openalex.org/W2110800670","https://openalex.org/W2117608012","https://openalex.org/W2119923823","https://openalex.org/W2121016876","https://openalex.org/W2128856835","https://openalex.org/W2131478115","https://openalex.org/W2134526812","https://openalex.org/W2135216100","https://openalex.org/W2138207763","https://openalex.org/W2153707226","https://openalex.org/W2159084616","https://openalex.org/W2200283537","https://openalex.org/W2296597603","https://openalex.org/W2562306914","https://openalex.org/W2567256921","https://openalex.org/W6679478440","https://openalex.org/W6730535548","https://openalex.org/W6731245586"],"related_works":["https://openalex.org/W2385628723","https://openalex.org/W2372078508","https://openalex.org/W2082502322","https://openalex.org/W2394342941","https://openalex.org/W4366069710","https://openalex.org/W2350586049","https://openalex.org/W3202870363","https://openalex.org/W312360222","https://openalex.org/W2110657911","https://openalex.org/W2484273108"],"abstract_inverted_index":{"An":[0],"implementation":[1],"is":[2,11],"available":[3,12],"at":[4,13],"https://github.com/rcanovas/libCSAM":[5],"CONTACT:":[6],"canovas-ba@lirmm.frSupplementary":[7],"Information:":[8],"Supplementary":[9],"data":[10],"Bioinformatics":[14],"online.":[15]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2}],"updated_date":"2026-03-04T09:10:02.777135","created_date":"2025-10-10T00:00:00"}
