{"id":"https://openalex.org/W2951912016","doi":"https://doi.org/10.1093/bioinformatics/bty560","title":"fastp: an ultra-fast all-in-one FASTQ preprocessor","display_name":"fastp: an ultra-fast all-in-one FASTQ preprocessor","publication_year":2018,"publication_date":"2018-07-07","ids":{"openalex":"https://openalex.org/W2951912016","doi":"https://doi.org/10.1093/bioinformatics/bty560","mag":"2951912016","pmid":"https://pubmed.ncbi.nlm.nih.gov/30423086"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty560","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty560","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i884/25702346/bty560.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i884/25702346/bty560.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002901852","display_name":"Shifu Chen","orcid":"https://orcid.org/0000-0001-5799-653X"},"institutions":[{"id":"https://openalex.org/I4210145761","display_name":"Shenzhen Institutes of Advanced Technology","ror":"https://ror.org/04gh4er46","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210145761"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shifu Chen","raw_affiliation_strings":["Department of Bioinformatics, HaploX Biotechnology, Shenzhen, China","Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China"],"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, HaploX Biotechnology, Shenzhen, China","institution_ids":[]},{"raw_affiliation_string":"Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China","institution_ids":["https://openalex.org/I4210145761"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052814282","display_name":"Yanqing Zhou","orcid":"https://orcid.org/0000-0002-9319-2579"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yanqing Zhou","raw_affiliation_strings":["Department of Bioinformatics, HaploX Biotechnology, Shenzhen, China"],"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, HaploX Biotechnology, Shenzhen, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037446400","display_name":"Yaru Chen","orcid":"https://orcid.org/0000-0003-2549-8880"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yaru Chen","raw_affiliation_strings":["Department of Bioinformatics, HaploX Biotechnology, Shenzhen, China"],"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, HaploX Biotechnology, Shenzhen, China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100755117","display_name":"Jia Gu","orcid":"https://orcid.org/0000-0001-7498-9892"},"institutions":[{"id":"https://openalex.org/I4210145761","display_name":"Shenzhen Institutes of Advanced Technology","ror":"https://ror.org/04gh4er46","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210145761"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jia Gu","raw_affiliation_strings":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China"],"affiliations":[{"raw_affiliation_string":"Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China","institution_ids":["https://openalex.org/I4210145761"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5002901852"],"corresponding_institution_ids":["https://openalex.org/I4210145761"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":691.0054,"has_fulltext":false,"cited_by_count":28176,"citation_normalized_percentile":{"value":1.0,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"34","issue":"17","first_page":"i884","last_page":"i890"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11181","display_name":"Advanced Data Storage Technologies","score":0.9957000017166138,"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"}},"topics":[{"id":"https://openalex.org/T11181","display_name":"Advanced Data Storage Technologies","score":0.9957000017166138,"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"}},{"id":"https://openalex.org/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.9876000285148621,"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"}},{"id":"https://openalex.org/T10522","display_name":"Medical Imaging Techniques and Applications","score":0.9836999773979187,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8609876036643982},{"id":"https://openalex.org/keywords/preprocessor","display_name":"Preprocessor","score":0.8018463850021362},{"id":"https://openalex.org/keywords/trimming","display_name":"Trimming","score":0.7430148720741272},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.7330666780471802},{"id":"https://openalex.org/keywords/adapter","display_name":"Adapter (computing)","score":0.635664701461792},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.55821692943573},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.47421860694885254},{"id":"https://openalex.org/keywords/data-pre-processing","display_name":"Data pre-processing","score":0.47121161222457886},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.43911799788475037},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4322468638420105},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.22665691375732422}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8609876036643982},{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.8018463850021362},{"id":"https://openalex.org/C56951928","wikidata":"https://www.wikidata.org/wiki/Q3539213","display_name":"Trimming","level":2,"score":0.7430148720741272},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.7330666780471802},{"id":"https://openalex.org/C177284502","wikidata":"https://www.wikidata.org/wiki/Q1005390","display_name":"Adapter (computing)","level":2,"score":0.635664701461792},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.55821692943573},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.47421860694885254},{"id":"https://openalex.org/C10551718","wikidata":"https://www.wikidata.org/wiki/Q5227332","display_name":"Data pre-processing","level":2,"score":0.47121161222457886},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.43911799788475037},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4322468638420105},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.22665691375732422}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bty560","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty560","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i884/25702346/bty560.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30423086","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30423086","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:europepmc.org:5083540","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6129281","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"pmh:oai:pubmedcentral.nih.gov:6129281","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6129281","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty560","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty560","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i884/25702346/bty560.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.5099999904632568}],"awards":[{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2094845583","display_name":null,"funder_award_id":"201602","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2981938667","display_name":null,"funder_award_id":"Shenzhen","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5988028503","display_name":"Evolution of the Biophysical Properties of the Septin Cytoskeleton","funder_award_id":"2016022","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7996457013","display_name":null,"funder_award_id":"2016022","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G951783493","display_name":null,"funder_award_id":"61472411","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":true,"pdf":false},"content_urls":{"grobid_xml":"https://content.openalex.org/works/W2951912016.grobid-xml"},"referenced_works_count":14,"referenced_works":["https://openalex.org/W1680591717","https://openalex.org/W2011645981","https://openalex.org/W2036897871","https://openalex.org/W2103441770","https://openalex.org/W2108234281","https://openalex.org/W2131271579","https://openalex.org/W2152956782","https://openalex.org/W2170551349","https://openalex.org/W2329906190","https://openalex.org/W2578418759","https://openalex.org/W2598066557","https://openalex.org/W2774072836","https://openalex.org/W2776197744","https://openalex.org/W2952109315"],"related_works":["https://openalex.org/W2467235537","https://openalex.org/W4243755427","https://openalex.org/W1493074871","https://openalex.org/W2222099502","https://openalex.org/W2128287377","https://openalex.org/W1979067309","https://openalex.org/W2375590729","https://openalex.org/W2385024427","https://openalex.org/W2978797270","https://openalex.org/W2789551765"],"abstract_inverted_index":{"The":[0],"open-source":[1],"code":[2],"and":[3],"corresponding":[4],"instructions":[5],"are":[6],"available":[7],"at":[8],"https://github.com/OpenGene/fastp.":[9]},"counts_by_year":[{"year":2026,"cited_by_count":2206},{"year":2025,"cited_by_count":7309},{"year":2024,"cited_by_count":7077},{"year":2023,"cited_by_count":4750},{"year":2022,"cited_by_count":3497},{"year":2021,"cited_by_count":2136},{"year":2020,"cited_by_count":956},{"year":2019,"cited_by_count":208},{"year":2018,"cited_by_count":14},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}
