{"id":"https://openalex.org/W4408717485","doi":"https://doi.org/10.1093/bioinformatics/btaf089","title":"NanoASV: a snakemake workflow for reproducible field-based Nanopore full-length 16S metabarcoding amplicon data analysis","display_name":"NanoASV: a snakemake workflow for reproducible field-based Nanopore full-length 16S metabarcoding amplicon data analysis","publication_year":2025,"publication_date":"2025-03-01","ids":{"openalex":"https://openalex.org/W4408717485","doi":"https://doi.org/10.1093/bioinformatics/btaf089","pmid":"https://pubmed.ncbi.nlm.nih.gov/40111866"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf089","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf089","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://doi.org/10.1093/bioinformatics/btaf089","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075991108","display_name":"Arthur Cousson","orcid":"https://orcid.org/0000-0002-7807-2560"},"institutions":[{"id":"https://openalex.org/I131077856","display_name":"Centre de Coop\u00e9ration Internationale en Recherche Agronomique pour le D\u00e9veloppement","ror":"https://ror.org/05kpkpg04","country_code":"FR","type":"facility","lineage":["https://openalex.org/I131077856"]},{"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/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210091717","display_name":"Ecologie fonctionnelle & biog\u00e9ochimie des sols & des agro-syst\u00e8mes","ror":"https://ror.org/00b80ez59","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I131077856","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I19894307","https://openalex.org/I24906876","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210091717","https://openalex.org/I4210113730","https://openalex.org/I4210117091","https://openalex.org/I4210131494","https://openalex.org/I4210147367","https://openalex.org/I4210166444","https://openalex.org/I4399657933","https://openalex.org/I4405257220"]},{"id":"https://openalex.org/I4210166444","display_name":"Institut de Recherche pour le D\u00e9veloppement","ror":"https://ror.org/05q3vnk25","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Arthur Cousson","raw_affiliation_strings":["Eco&Sols, University of Montpellier, IRD, INRAe, CIRAD , Inst Agro, Montpellier F-34060,","Univ Montpellier, Inst Agro, UMR Eco &Sols, IRD, CIRAD, INRAe, Montpellier, F-34060, France"],"raw_orcid":"https://orcid.org/0000-0002-7807-2560","affiliations":[{"raw_affiliation_string":"Eco&Sols, University of Montpellier, IRD, INRAe, CIRAD , Inst Agro, Montpellier F-34060,","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I4210088668","https://openalex.org/I4210091717","https://openalex.org/I4210166444"]},{"raw_affiliation_string":"Univ Montpellier, Inst Agro, UMR Eco &Sols, IRD, CIRAD, INRAe, Montpellier, F-34060, France","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I19894307","https://openalex.org/I4210088668","https://openalex.org/I4210091717","https://openalex.org/I4210166444"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074791594","display_name":"Fr\u00e9d\u00e9ric Mah\u00e9","orcid":"https://orcid.org/0000-0002-2808-0984"},"institutions":[{"id":"https://openalex.org/I131077856","display_name":"Centre de Coop\u00e9ration Internationale en Recherche Agronomique pour le D\u00e9veloppement","ror":"https://ror.org/05kpkpg04","country_code":"FR","type":"facility","lineage":["https://openalex.org/I131077856"]},{"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/I24906876","display_name":"Institut Agro Montpellier","ror":"https://ror.org/03rnk6m14","country_code":"FR","type":"education","lineage":["https://openalex.org/I24906876","https://openalex.org/I4210117091","https://openalex.org/I4399657933"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210136436","display_name":"Institut Agro Montpelier","ror":null,"country_code":"FR","type":null,"lineage":["https://openalex.org/I4210136436"]},{"id":"https://openalex.org/I4210147367","display_name":"Services d\u00e9concentr\u00e9s d'appui \u00e0 la recherche Occitanie-Montpellier","ror":"https://ror.org/03fkrcm40","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210147367"]},{"id":"https://openalex.org/I4210166444","display_name":"Institut de Recherche pour le D\u00e9veloppement","ror":"https://ror.org/05q3vnk25","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]},{"id":"https://openalex.org/I4399598379","display_name":"Plant Health Institute de Montpellier","ror":"https://ror.org/05y5s3h28","country_code":null,"type":"education","lineage":["https://openalex.org/I1294671590","https://openalex.org/I131077856","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I19894307","https://openalex.org/I24906876","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210113730","https://openalex.org/I4210117091","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4399598379","https://openalex.org/I4399657933","https://openalex.org/I4405257220"]},{"id":"https://openalex.org/I4399657933","display_name":"L'Institut Agro","ror":"https://ror.org/01dkyve95","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210117091","https://openalex.org/I4399657933"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Fr\u00e9d\u00e9ric Mah\u00e9","raw_affiliation_strings":["CIRAD, UMR PHIM , F-34398 Montpellier,","PHIM, Univ Montpellier, CIRAD, INRAE, Institut Agro , IRD, Montpellier,","CIRAD, UMR PHIM, Montpellier, F-34398, France","PHIM, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France"],"raw_orcid":"https://orcid.org/0000-0002-2808-0984","affiliations":[{"raw_affiliation_string":"CIRAD, UMR PHIM , F-34398 Montpellier,","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I4210147367"]},{"raw_affiliation_string":"PHIM, Univ Montpellier, CIRAD, INRAE, Institut Agro , IRD, Montpellier,","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I19894307","https://openalex.org/I4210088668","https://openalex.org/I4210136436","https://openalex.org/I4210147367","https://openalex.org/I4210166444"]},{"raw_affiliation_string":"CIRAD, UMR PHIM, Montpellier, F-34398, France","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I4399598379"]},{"raw_affiliation_string":"PHIM, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I19894307","https://openalex.org/I24906876","https://openalex.org/I4210088668","https://openalex.org/I4210166444","https://openalex.org/I4399598379","https://openalex.org/I4399657933"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061175430","display_name":"Ulysse Guyet","orcid":"https://orcid.org/0000-0002-3603-5382"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210115028","display_name":"Genoscope","ror":"https://ror.org/028pnqf58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210115028"]},{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Ulysse Guyet","raw_affiliation_strings":["Metabolic Genomics, Genoscope, Institut de Biologie Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris Saclay , Evry 91000,","Universit\u00e9 d'Evry, Universit\u00e9 Paris Saclay Metabolic Genomics, Genoscope, Institut de Biologie Fran\u00e7ois Jacob, CEA, CNRS, , Evry, 91000,"],"raw_orcid":"https://orcid.org/0000-0002-3603-5382","affiliations":[{"raw_affiliation_string":"Metabolic Genomics, Genoscope, Institut de Biologie Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris Saclay , Evry 91000,","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210115028","https://openalex.org/I4210128565"]},{"raw_affiliation_string":"Universit\u00e9 d'Evry, Universit\u00e9 Paris Saclay Metabolic Genomics, Genoscope, Institut de Biologie Fran\u00e7ois Jacob, CEA, CNRS, , Evry, 91000,","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210115028","https://openalex.org/I4210128565"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5116740787","display_name":"Damase Razafimahafaly","orcid":null},"institutions":[{"id":"https://openalex.org/I137724175","display_name":"University of Antananarivo","ror":"https://ror.org/02w4gwv87","country_code":"MG","type":"education","lineage":["https://openalex.org/I137724175"]}],"countries":["MG"],"is_corresponding":false,"raw_author_name":"Damase Razafimahafaly","raw_affiliation_strings":["Laboratoire des Radio-Isotopes, BP 3383, Route d\u2019Andraisoro , Antananarivo 101,","Laboratoire des Radio-Isotopes, Universit\u00e9 d\u2019Antananarivo , Antananarivo, BP 3383, Madagascar 101"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire des Radio-Isotopes, BP 3383, Route d\u2019Andraisoro , Antananarivo 101,","institution_ids":["https://openalex.org/I137724175"]},{"raw_affiliation_string":"Laboratoire des Radio-Isotopes, Universit\u00e9 d\u2019Antananarivo , Antananarivo, BP 3383, Madagascar 101","institution_ids":["https://openalex.org/I137724175"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024538322","display_name":"La\u00ebtitia Bernard","orcid":"https://orcid.org/0000-0002-7057-6182"},"institutions":[{"id":"https://openalex.org/I131077856","display_name":"Centre de Coop\u00e9ration Internationale en Recherche Agronomique pour le D\u00e9veloppement","ror":"https://ror.org/05kpkpg04","country_code":"FR","type":"facility","lineage":["https://openalex.org/I131077856"]},{"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/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210091717","display_name":"Ecologie fonctionnelle & biog\u00e9ochimie des sols & des agro-syst\u00e8mes","ror":"https://ror.org/00b80ez59","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I131077856","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I19894307","https://openalex.org/I24906876","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210091717","https://openalex.org/I4210113730","https://openalex.org/I4210117091","https://openalex.org/I4210131494","https://openalex.org/I4210147367","https://openalex.org/I4210166444","https://openalex.org/I4399657933","https://openalex.org/I4405257220"]},{"id":"https://openalex.org/I4210166444","display_name":"Institut de Recherche pour le D\u00e9veloppement","ror":"https://ror.org/05q3vnk25","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Laetitia Bernard","raw_affiliation_strings":["Eco&Sols, University of Montpellier, IRD, INRAe, CIRAD , Inst Agro, Montpellier F-34060,","Univ Montpellier, Inst Agro, UMR Eco &Sols, IRD, CIRAD, INRAe, Montpellier, F-34060, France"],"raw_orcid":"https://orcid.org/0000-0002-7057-6182","affiliations":[{"raw_affiliation_string":"Eco&Sols, University of Montpellier, IRD, INRAe, CIRAD , Inst Agro, Montpellier F-34060,","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I4210088668","https://openalex.org/I4210091717","https://openalex.org/I4210166444"]},{"raw_affiliation_string":"Univ Montpellier, Inst Agro, UMR Eco &Sols, IRD, CIRAD, INRAe, Montpellier, F-34060, France","institution_ids":["https://openalex.org/I131077856","https://openalex.org/I19894307","https://openalex.org/I4210088668","https://openalex.org/I4210091717","https://openalex.org/I4210166444"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":16,"corresponding_author_ids":["https://openalex.org/A5075991108"],"corresponding_institution_ids":["https://openalex.org/I131077856","https://openalex.org/I19894307","https://openalex.org/I4210088668","https://openalex.org/I4210091717","https://openalex.org/I4210166444"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.1441,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.75099524,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"41","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9767000079154968,"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":0.9767000079154968,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9715999960899353,"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/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.970300018787384,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7387664318084717},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.727851152420044},{"id":"https://openalex.org/keywords/software-portability","display_name":"Software portability","score":0.6531655788421631},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.634443998336792},{"id":"https://openalex.org/keywords/nanopore-sequencing","display_name":"Nanopore sequencing","score":0.6200264096260071},{"id":"https://openalex.org/keywords/documentation","display_name":"Documentation","score":0.6040855646133423},{"id":"https://openalex.org/keywords/amplicon","display_name":"Amplicon","score":0.5934316515922546},{"id":"https://openalex.org/keywords/ensembl","display_name":"Ensembl","score":0.5713408589363098},{"id":"https://openalex.org/keywords/amplicon-sequencing","display_name":"Amplicon sequencing","score":0.5368633270263672},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.4916859269142151},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.48493245244026184},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4659577012062073},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.41840749979019165},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.34325703978538513},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.3130543828010559},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.2538881003856659},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.24664852023124695},{"id":"https://openalex.org/keywords/16s-ribosomal-rna","display_name":"16S ribosomal RNA","score":0.185011088848114},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15392011404037476},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.11399030685424805},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09201812744140625},{"id":"https://openalex.org/keywords/polymerase-chain-reaction","display_name":"Polymerase chain reaction","score":0.08724227547645569},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.0823504626750946},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.0749443769454956}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7387664318084717},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.727851152420044},{"id":"https://openalex.org/C63000827","wikidata":"https://www.wikidata.org/wiki/Q3080428","display_name":"Software portability","level":2,"score":0.6531655788421631},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.634443998336792},{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.6200264096260071},{"id":"https://openalex.org/C56666940","wikidata":"https://www.wikidata.org/wiki/Q788790","display_name":"Documentation","level":2,"score":0.6040855646133423},{"id":"https://openalex.org/C8185291","wikidata":"https://www.wikidata.org/wiki/Q2844457","display_name":"Amplicon","level":4,"score":0.5934316515922546},{"id":"https://openalex.org/C141674004","wikidata":"https://www.wikidata.org/wiki/Q1344256","display_name":"Ensembl","level":5,"score":0.5713408589363098},{"id":"https://openalex.org/C2993206177","wikidata":"https://www.wikidata.org/wiki/Q2844457","display_name":"Amplicon sequencing","level":4,"score":0.5368633270263672},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.4916859269142151},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.48493245244026184},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4659577012062073},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.41840749979019165},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.34325703978538513},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.3130543828010559},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.2538881003856659},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.24664852023124695},{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.185011088848114},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15392011404037476},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.11399030685424805},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09201812744140625},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.08724227547645569},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.0823504626750946},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.0749443769454956},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btaf089","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf089","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40111866","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40111866","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:cea-05047133v1","is_oa":true,"landing_page_url":"https://cea.hal.science/cea-05047133","pdf_url":"https://cea.hal.science/cea-05047133v1/document","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://academic.oup.com/bioinformatics/article/41/3/btaf089/8088232","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:agritrop.cirad.fr:614056","is_oa":true,"landing_page_url":"http://agritrop.cirad.fr/614056/","pdf_url":"http://agritrop.cirad.fr/614056/1/614056.pdf","source":{"id":"https://openalex.org/S4306402311","display_name":"Agritrop (Cirad)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I131077856","host_organization_name":"Centre de Coop\u00e9ration Internationale en Recherche Agronomique pour le D\u00e9veloppement","host_organization_lineage":["https://openalex.org/I131077856"],"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":"Bioinformatics","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11937976","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11937976","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf089","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf089","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3421099623","display_name":"Comprendre et utiliser les services \u00e9cosyst\u00e9miques fournis par les vers de terre","funder_award_id":"ANR-20-CE01-0015","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G4339915036","display_name":"Agricultural Sciences for sustainable Development","funder_award_id":"ANR-10-LABX-0001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320328356","display_name":"R\u00e9gion Occitanie Pyr\u00e9n\u00e9es-M\u00e9diterran\u00e9e","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W2034285706","https://openalex.org/W2056279562","https://openalex.org/W2105329815","https://openalex.org/W2160378127","https://openalex.org/W2513506562","https://openalex.org/W2789843538","https://openalex.org/W2883251903","https://openalex.org/W3003882680","https://openalex.org/W3007601977","https://openalex.org/W3093800398","https://openalex.org/W3131055609","https://openalex.org/W4366590594","https://openalex.org/W4376256177"],"related_works":["https://openalex.org/W4281567513","https://openalex.org/W2506843120","https://openalex.org/W4396749209","https://openalex.org/W2970289413","https://openalex.org/W4390154386","https://openalex.org/W2306179760","https://openalex.org/W2945285105","https://openalex.org/W3032384960","https://openalex.org/W4406127988","https://openalex.org/W2945250978"],"abstract_inverted_index":{"SUMMARY:":[0],"NanoASV":[1],"is":[2],"a":[3],"conda":[4],"environment":[5],"and":[6,32,51,60,67],"snakemake-based":[7],"workflow":[8],"using":[9],"state-of-the-art":[10],"bioinformatics":[11],"software":[12],"to":[13,35],"process":[14,52],"full-length":[15],"SSU":[16],"rRNA":[17],"(16S/18S)":[18],"amplicons":[19],"acquired":[20],"with":[21],"Oxford":[22],"Nanopore":[23,47],"Sequencing":[24],"technology.":[25],"Its":[26],"strength":[27],"lies":[28],"in":[29],"reproducibility,":[30],"portability,":[31],"the":[33,46],"possibility":[34],"run":[36],"offline,":[37],"allowing":[38],"in-field":[39],"analysis.":[40],"It":[41],"can":[42],"be":[43],"installed":[44],"on":[45],"MK1C":[48],"sequencing":[49],"device":[50],"data":[53],"locally.":[54],"AVAILABILITY":[55],"AND":[56],"IMPLEMENTATION:":[57],"Source":[58],"code":[59],"documentation":[61],"are":[62],"freely":[63],"available":[64],"at":[65,70],"https://github.com/ImagoXV/NanoASV":[66],"Zenodo":[68],"archive":[69],"https://doi.org/10.5281/zenodo.14730742.":[71]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2}],"updated_date":"2026-08-19T15:00:24.278416","created_date":"2025-10-10T00:00:00"}
