[{"_1":2,"_3":-5,"_4":-5},"loaderData",{"_5":6,"_7":8,"_9":10},"actionData","errors","root",{"_265":266},"routes/_layout",{"_11":192},"routes/entity.$type.$id",{"_11":12,"_13":14,"_15":16,"_17":18,"_19":20,"_21":22,"_23":24,"_25":26,"_27":28},"dehydratedState",{"_75":76,"_77":78},"type","paper","id","paper_W2132378736","section","technologies","entity",{"_15":16,"_29":30,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":38,"_39":-5,"_40":41,"_42":43,"_44":45,"_46":47,"_48":49,"_50":51,"_52":30,"_53":54,"_55":56,"_57":58,"_59":60,"_61":62,"_63":-5,"_64":65,"_66":67,"_68":69,"_70":30,"_71":-5},"canonical","https://www.hugmap.com/entity/paper/paper_W2132378736/technologies","siteBaseUrl","https://www.hugmap.com","sectionCount",1,"jsonLd","{\"@context\":\"https://schema.org\",\"@graph\":[{\"name\":\"SAMBLASTER: fast duplicate marking and structural variant read extraction\",\"url\":\"https://www.hugmap.com/entity/paper/paper_W2132378736/technologies\",\"@type\":\"ScholarlyArticle\",\"headline\":\"SAMBLASTER: fast duplicate marking and structural variant read extraction\",\"datePublished\":\"2014-05-07\",\"isPartOf\":{\"@type\":\"Periodical\",\"name\":\"Bioinformatics\"}},{\"@type\":\"CollectionPage\",\"name\":\"SAMBLASTER: fast duplicate marking and structural variant read extraction 相关技术\",\"description\":\"SAMBLASTER: fast duplicate marking and structural variant read extraction 在 HugMap 中的相关技术，共 1 条，含结构化关联信息与详情链接。\",\"url\":\"https://www.hugmap.com/entity/paper/paper_W2132378736/technologies\",\"inLanguage\":\"zh-CN\"},{\"@type\":\"BreadcrumbList\",\"itemListElement\":[{\"@type\":\"ListItem\",\"position\":1,\"name\":\"首页\",\"item\":\"https://www.hugmap.com/\"},{\"@type\":\"ListItem\",\"position\":2,\"name\":\"论文\",\"item\":\"https://www.hugmap.com/search?type=paper\"},{\"@type\":\"ListItem\",\"position\":3,\"name\":\"SAMBLASTER: fast duplicate marking and structural variant read extraction\",\"item\":\"https://www.hugmap.com/entity/paper/paper_W2132378736\"},{\"@type\":\"ListItem\",\"position\":4,\"name\":\"相关技术\",\"item\":\"https://www.hugmap.com/entity/paper/paper_W2132378736/technologies\"}]}]}","name","SAMBLASTER: fast duplicate marking and structural variant read extraction","nameZh","aliases","description","descriptionZh","status","active","externalIds","{\"arxiv\":\"1403.7486\",\"openalex\":\"W2132378736\",\"doi\":\"10.1093/bioinformatics/btu314\"}","properties","source","openalex","createdAt","2026-05-14T13:56:12.297551161","updatedAt","2026-05-21T17:46:09.18347678","doi","10.1093/bioinformatics/btu314","arxivId","1403.7486","openalexId","W2132378736","title","abstractText","Motivation: Illumina DNA sequencing is now the predominant source of raw genomic data, and data volumes are growing rapidly. Bioinformatic analysis pipelines are having trouble keeping pace. A common bottleneck in such pipelines is the requirement to read, write, sort and compress large BAM files multiple times. Results: We present SAMBLASTER, a tool that reduces the number of times such costly operations are performed. SAMBLASTER is designed to mark duplicates in read-sorted SAM files as a piped post-pass on DNA aligner output before it is compressed to BAM. In addition, it can simultaneously output into separate files the discordant read-pairs and/or split-read mappings used for structural variant calling. As an alignment post-pass, its own runtime overhead is negligible, while dramatically reducing overall pipeline complexity and runtime. As a stand-alone duplicate marking tool, it performs significantly better than PICARD or SAMBAMBA in terms of both speed and memory usage, while achieving nearly identical results. Availability and implementation: SAMBLASTER is open-source C++ code and freely available for download from https://github.com/GregoryFaust/samblaster. Contact: imh4y@virginia.edu","publishedDate","2014-05-07","publishedYear",2014,"venue","Bioinformatics","citationCount",1013,"authors","keywords",[72,73,74],"pdfUrl","https://arxiv.org/pdf/1403.7486","topVenue",true,"displayName","displayDescription","Genomics and Phylogenetic Studies","Algorithms and Data Compression","Molecular Biology Techniques and Applications","mutations",[],"queries",[79],{"_80":81,"_82":83,"_84":85,"_86":87},"dehydratedAt",1784570550861,"state",{"_89":90,"_91":26,"_92":81,"_93":-5,"_94":95,"_96":95,"_97":95,"_98":-5,"_99":-5,"_100":101,"_35":102,"_103":104},"queryKey",[88,19,14,16],"queryHash","[\"portal\",\"entity\",\"paper\",\"paper_W2132378736\"]","portal","data",{"_19":20,"_105":106,"_107":108,"_109":110,"_111":112,"_18":113,"_63":114},"dataUpdateCount","dataUpdatedAt","error","errorUpdateCount",0,"errorUpdatedAt","fetchFailureCount","fetchFailureReason","fetchMeta","isInvalidated",false,"success","fetchStatus","idle","entityType","Paper","taxonomies",[153,154,155,156],"events",[],"articles",[],[138],[115,116],{"_15":132,"_29":133,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":134,"_39":-5,"_40":41,"_42":135,"_44":136,"_122":137,"_52":-5,"_124":-5,"_125":-5,"_126":-5,"_61":-5,"_127":-5,"_128":-5,"_129":-5,"_130":-5,"_131":-5,"_70":133,"_71":-5},{"_15":117,"_29":118,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":119,"_39":-5,"_40":41,"_42":120,"_44":121,"_122":123,"_52":-5,"_124":-5,"_125":-5,"_126":-5,"_61":-5,"_127":-5,"_128":-5,"_129":-5,"_130":-5,"_131":-5,"_70":118,"_71":-5},"person_A5091480053","Gregory G. Faust","{\"openalex\":\"A5091480053\",\"orcid\":\"0000-0002-8233-9408\"}","2026-05-14T13:56:12.400001611","2026-05-21T17:46:09.190156159","orcid","0000-0002-8233-9408","affiliation","researchArea","paperCount","homepage","linkedin","twitter","github","hindex","person_A5026920706","Ira M. Hall","{\"openalex\":\"A5026920706\",\"orcid\":\"0000-0003-4442-6655\"}","2026-05-14T13:56:13.17978049","2026-05-21T17:46:09.19834305","0000-0003-4442-6655",{"_15":139,"_29":73,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":140,"_39":-5,"_40":141,"_42":142,"_44":143,"_144":145,"_146":147,"_148":-5,"_149":150,"_151":-5,"_126":-5,"_152":-5,"_70":73,"_71":-5},"tech_oa_T11269","{\"taxonomy_id\":\"tax_rd_T11269\"}","openalex_topics","2026-05-17T09:00:04.314108761","2026-05-17T09:00:04.314111476","techType","algorithm","domain","Physical Sciences","proposedYear","maturityLevel","growing","wikipediaUrl","patentCount",{"_15":185,"_29":186,"_31":-5,"_32":-5,"_33":187,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":191,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":186,"_71":187},{"_15":180,"_29":72,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":181,"_39":-5,"_40":41,"_42":182,"_44":183,"_161":162,"_163":-5,"_164":165,"_166":167,"_168":184,"_170":95,"_171":69,"_172":95,"_173":-5,"_70":72,"_71":-5},{"_15":174,"_29":73,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":175,"_39":-5,"_40":41,"_42":176,"_44":177,"_161":162,"_163":-5,"_164":165,"_166":178,"_168":179,"_170":95,"_171":69,"_172":95,"_173":-5,"_70":73,"_71":-5},{"_15":157,"_29":74,"_31":-5,"_32":-5,"_33":-5,"_34":-5,"_35":36,"_37":158,"_39":-5,"_40":41,"_42":159,"_44":160,"_161":162,"_163":-5,"_164":165,"_166":167,"_168":169,"_170":95,"_171":69,"_172":95,"_173":-5,"_70":74,"_71":-5},"tax_rd_T11970","{\"openalex_topic\":\"T11970\"}","2026-05-14T03:24:31.363836706","2026-05-23T10:59:35.213688317","taxonomyType","RESEARCH_DOMAIN","code","level",3,"parentId","tax_rd_1312","path","Life Sciences/Biochemistry, Genetics and Molecular Biology/Molecular Biology/Molecular Biology Techniques and Applications","sortOrder","isLeaf","entityCount","children","tax_rd_T11269","{\"openalex_topic\":\"T11269\"}","2026-05-14T00:27:39.500255361","2026-05-23T12:37:14.210648625","tax_rd_1702","Physical Sciences/Computer Science/Artificial Intelligence/Algorithms and Data Compression","tax_rd_T10015","{\"openalex_topic\":\"T10015\"}","2026-05-14T00:27:39.470917453","2026-05-23T12:19:36.228027873","Life Sciences/Biochemistry, Genetics and Molecular Biology/Molecular Biology/Genomics and Phylogenetic Studies","tax_ind_biotech","生物科技","Biotech","manual","INDUSTRY","tax_ind_root","科技行业/生物科技",{"_75":193,"_77":194},[],[195],{"_80":196,"_82":197,"_84":198,"_86":199},1784570547171,{"_89":201,"_91":26,"_92":196,"_93":-5,"_94":95,"_96":95,"_97":95,"_98":-5,"_99":-5,"_100":101,"_35":102,"_103":104},[88,200],"[\"portal\",\"industries\"]","industries",[202,203,204,205,206,207,208,209,210,211,212,213],{"_15":258,"_29":259,"_31":-5,"_32":260,"_33":261,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":262,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":259,"_71":261},{"_15":254,"_29":255,"_31":-5,"_32":-5,"_33":256,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":257,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":255,"_71":256},{"_15":248,"_29":249,"_31":-5,"_32":250,"_33":251,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":252,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":249,"_71":251},{"_15":244,"_29":245,"_31":-5,"_32":-5,"_33":246,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":247,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":245,"_71":246},{"_15":240,"_29":241,"_31":-5,"_32":-5,"_33":242,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":243,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":241,"_71":242},{"_15":234,"_29":235,"_31":-5,"_32":236,"_33":237,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":238,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":235,"_71":237},{"_15":230,"_29":231,"_31":-5,"_32":-5,"_33":232,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":233,"_170":95,"_171":69,"_172":95,"_173":-5,"_70":231,"_71":232},{"_15":185,"_29":186,"_31":-5,"_32":-5,"_33":187,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":191,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":186,"_71":187},{"_15":226,"_29":227,"_31":-5,"_32":-5,"_33":228,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":229,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":227,"_71":228},{"_15":222,"_29":223,"_31":-5,"_32":-5,"_33":224,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":225,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":223,"_71":224},{"_15":218,"_29":219,"_31":-5,"_32":-5,"_33":220,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":221,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":219,"_71":220},{"_15":214,"_29":215,"_31":-5,"_32":-5,"_33":216,"_34":-5,"_35":36,"_37":-5,"_39":-5,"_40":188,"_42":-5,"_44":-5,"_161":189,"_163":-5,"_164":26,"_166":190,"_168":217,"_170":95,"_171":101,"_172":95,"_173":-5,"_70":215,"_71":216},"tax_ind_smartphone","智能手机","Smartphone","科技行业/智能手机","tax_ind_robot","机器人","Robotics","科技行业/机器人","tax_ind_wearable","智能穿戴","Smart Wearables","科技行业/智能穿戴","tax_ind_energy","新能源与智能制造","New Energy & Smart Manufacturing","科技行业/新能源与智能制造","tax_ind_quantum","量子计算","Quantum Computing","科技行业/量子计算","tax_ind_blockchain","区块链",[239],"Blockchain","科技行业/区块链","Web3","tax_ind_enterprise","企业软件","Enterprise Software","科技行业/企业软件","tax_ind_security","网络安全","Cybersecurity","科技行业/网络安全","tax_ind_semi","半导体",[253],"Semiconductor","科技行业/半导体","芯片","tax_ind_cloud","云计算","Cloud Computing","科技行业/云计算","tax_ind_ai","人工智能",[263,264],"Artificial Intelligence","科技行业/人工智能","AI","AI 技术","env",{"_267":24},"SITE_BASE_URL"]

<i>SAMBLASTER</i>: fast duplicate marking and structural variant read extraction 论文

<i>SAMBLASTER</i>: fast duplicate marking and structural variant read extraction · 相关技术

相关技术