{"id":"https://openalex.org/W4402007129","doi":"https://doi.org/10.1101/2024.08.23.609468","title":"tombRaider \u2013 improved species and haplotype recovery from metabarcoding data through artefact and pseudogene exclusion","display_name":"tombRaider \u2013 improved species and haplotype recovery from metabarcoding data through artefact and pseudogene exclusion","publication_year":2024,"publication_date":"2024-08-26","ids":{"openalex":"https://openalex.org/W4402007129","doi":"https://doi.org/10.1101/2024.08.23.609468"},"language":"en","primary_location":{"id":"doi:10.1101/2024.08.23.609468","doi":"https://doi.org/10.1101/2024.08.23.609468","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2024.08.23.609468","pdf_url":null,"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,"listed_in":[],"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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.1101/2024.08.23.609468","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065194254","display_name":"Gert\u2010Jan Jeunen","orcid":"https://orcid.org/0000-0001-7458-3550","observed_orcids":["https://orcid.org/0000-0001-7458-3550"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":true,"raw_author_name":"Gert-Jan Jeunen","raw_affiliation_strings":["Department of Marine Science, University of Otago","Department of Marine Science, University of Otago, Dunedin 906, New Zealand"],"raw_orcid":"https://orcid.org/0000-0001-7458-3550","affiliations":[{"raw_affiliation_string":"Department of Marine Science, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Marine Science, University of Otago, Dunedin 906, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031519336","display_name":"Kristen Fernandes","orcid":"https://orcid.org/0000-0003-3388-5354","observed_orcids":["https://orcid.org/0000-0003-3388-5354"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Kristen Fernandes","raw_affiliation_strings":["Department of Anatomy, University of Otago","Department of Anatomy, University of Otago, Dunedin 9016, New Zealand"],"raw_orcid":"https://orcid.org/0000-0003-3388-5354","affiliations":[{"raw_affiliation_string":"Department of Anatomy, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Anatomy, University of Otago, Dunedin 9016, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046651038","display_name":"Eddy Dowle","orcid":"https://orcid.org/0000-0003-2265-6281","observed_orcids":["https://orcid.org/0000-0003-2265-6281"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Eddy Dowle","raw_affiliation_strings":["Department of Anatomy, University of Otago","Department of Anatomy, University of Otago, Dunedin 9016, New Zealand"],"raw_orcid":"https://orcid.org/0000-0003-2265-6281","affiliations":[{"raw_affiliation_string":"Department of Anatomy, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Anatomy, University of Otago, Dunedin 9016, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084851642","display_name":"Gracie C. Kroos","orcid":"https://orcid.org/0000-0002-6209-8619","observed_orcids":["https://orcid.org/0000-0002-6209-8619"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Gracie C. Kroos","raw_affiliation_strings":["Department of Anatomy, University of Otago","Department of Anatomy, University of Otago, Dunedin 9016, New Zealand"],"raw_orcid":"https://orcid.org/0000-0002-6209-8619","affiliations":[{"raw_affiliation_string":"Department of Anatomy, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Anatomy, University of Otago, Dunedin 9016, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011655969","display_name":"Quentin Mauvisseau","orcid":"https://orcid.org/0000-0003-1215-2987","observed_orcids":["https://orcid.org/0000-0003-1215-2987","https://orcid.org/0000-0001-8963-2482"]},"institutions":[{"id":"https://openalex.org/I184942183","display_name":"University of Oslo","ror":"https://ror.org/01xtthb56","country_code":"NO","type":"education","lineage":["https://openalex.org/I184942183"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Quentin Mauvisseau","raw_affiliation_strings":["Natural History Museum, University of Oslo","Natural History Museum, University of Oslo, Oslo 0562, Norway"],"raw_orcid":"https://orcid.org/0000-0003-1215-2987","affiliations":[{"raw_affiliation_string":"Natural History Museum, University of Oslo","institution_ids":["https://openalex.org/I184942183"]},{"raw_affiliation_string":"Natural History Museum, University of Oslo, Oslo 0562, Norway","institution_ids":["https://openalex.org/I184942183"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045605737","display_name":"Michal Torma","orcid":"https://orcid.org/0000-0002-2690-9509","observed_orcids":["https://orcid.org/0000-0002-2690-9509"]},"institutions":[{"id":"https://openalex.org/I184942183","display_name":"University of Oslo","ror":"https://ror.org/01xtthb56","country_code":"NO","type":"education","lineage":["https://openalex.org/I184942183"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Michal Torma","raw_affiliation_strings":["Natural History Museum, University of Oslo","Natural History Museum, University of Oslo, Oslo 0562, Norway"],"raw_orcid":"https://orcid.org/0000-0002-2690-9509","affiliations":[{"raw_affiliation_string":"Natural History Museum, University of Oslo","institution_ids":["https://openalex.org/I184942183"]},{"raw_affiliation_string":"Natural History Museum, University of Oslo, Oslo 0562, Norway","institution_ids":["https://openalex.org/I184942183"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053094190","display_name":"Allison K. Miller","orcid":"https://orcid.org/0000-0002-5334-2771","observed_orcids":["https://orcid.org/0000-0002-5334-2771"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Allison K. Miller","raw_affiliation_strings":["Department of Anatomy, University of Otago","Department of Microbiology, University of Otago","Department of Anatomy, University of Otago, Dunedin 9016, New Zealand","Department of Microbiology, University of Otago, Dunedin 9016, New Zealand"],"raw_orcid":"https://orcid.org/0000-0002-5334-2771","affiliations":[{"raw_affiliation_string":"Department of Anatomy, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Microbiology, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Anatomy, University of Otago, Dunedin 9016, New Zealand","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Microbiology, University of Otago, Dunedin 9016, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037116623","display_name":"Miles D. Lamare","orcid":"https://orcid.org/0000-0001-8656-7240","observed_orcids":["https://orcid.org/0000-0001-8656-7240"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Miles Lamare","raw_affiliation_strings":["Department of Marine Science, University of Otago","Department of Marine Science, University of Otago, Dunedin 906, New Zealand"],"raw_orcid":"https://orcid.org/0000-0001-8656-7240","affiliations":[{"raw_affiliation_string":"Department of Marine Science, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Marine Science, University of Otago, Dunedin 906, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065672420","display_name":"Neil J. Gemmell","orcid":"https://orcid.org/0000-0003-0671-3637","observed_orcids":["https://orcid.org/0000-0003-0671-3637"]},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Neil Gemmell","raw_affiliation_strings":["Department of Anatomy, University of Otago","Department of Anatomy, University of Otago, Dunedin 9016, New Zealand"],"raw_orcid":"https://orcid.org/0000-0003-0671-3637","affiliations":[{"raw_affiliation_string":"Department of Anatomy, University of Otago","institution_ids":["https://openalex.org/I80281795"]},{"raw_affiliation_string":"Department of Anatomy, University of Otago, Dunedin 9016, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5065194254"],"corresponding_institution_ids":["https://openalex.org/I80281795"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":1.0,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.0,"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/T14399","display_name":"Invertebrate Taxonomy and Ecology","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1105","display_name":"Ecology, Evolution, Behavior and Systematics"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/edna-metabarcoding","display_name":"eDNA metabarcoding","score":0.9399999976158142},{"id":"https://openalex.org/keywords/artifact-removal","display_name":"artifact removal","score":0.8140000104904175},{"id":"https://openalex.org/keywords/species-identification","display_name":"species identification","score":0.7519999742507935},{"id":"https://openalex.org/keywords/haplotype-identification","display_name":"haplotype identification","score":0.949999988079071},{"id":"https://openalex.org/keywords/sequence-filtering","display_name":"sequence filtering","score":0.36399999260902405},{"id":"https://openalex.org/keywords/stop-codon","display_name":"stop codon","score":0.8270000219345093},{"id":"https://openalex.org/keywords/co-occurrence-patterns","display_name":"co-occurrence patterns","score":0.8230000138282776},{"id":"https://openalex.org/keywords/mock-communities","display_name":"mock communities","score":0.6779999732971191},{"id":"https://openalex.org/keywords/biodiversity-indicators","display_name":"biodiversity indicators","score":0.5640000104904175},{"id":"https://openalex.org/keywords/reproducibility","display_name":"reproducibility","score":0.6639999747276306},{"id":"https://openalex.org/keywords/reporting-guidelines","display_name":"reporting guidelines","score":0.48899999260902405}],"concepts":[{"id":"https://openalex.org/C2779969263","wikidata":"https://www.wikidata.org/wiki/Q25098939","display_name":"Environmental DNA","level":3,"score":0.7710074186325073},{"id":"https://openalex.org/C34957205","wikidata":"https://www.wikidata.org/wiki/Q277338","display_name":"Pseudogene","level":4,"score":0.6055979132652283},{"id":"https://openalex.org/C130217890","wikidata":"https://www.wikidata.org/wiki/Q47041","display_name":"Biodiversity","level":2,"score":0.4556572139263153},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4482569098472595},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.445487380027771},{"id":"https://openalex.org/C197754878","wikidata":"https://www.wikidata.org/wiki/Q80711","display_name":"Haplotype","level":4,"score":0.434693306684494},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3539298176765442},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3381921648979187},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.30004191398620605},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14210999011993408},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12408414483070374},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.11341482400894165},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1101/2024.08.23.609468","doi":"https://doi.org/10.1101/2024.08.23.609468","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2024.08.23.609468","pdf_url":null,"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,"listed_in":[],"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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.1101/2024.08.23.609468","doi":"https://doi.org/10.1101/2024.08.23.609468","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2024.08.23.609468","pdf_url":null,"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,"listed_in":[],"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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":86,"referenced_works":["https://openalex.org/W1551951435","https://openalex.org/W1569930069","https://openalex.org/W1914049201","https://openalex.org/W1992257986","https://openalex.org/W2036897871","https://openalex.org/W2055043387","https://openalex.org/W2056279562","https://openalex.org/W2063580733","https://openalex.org/W2072970694","https://openalex.org/W2074231493","https://openalex.org/W2087064593","https://openalex.org/W2088008394","https://openalex.org/W2088170018","https://openalex.org/W2090454769","https://openalex.org/W2099739579","https://openalex.org/W2099901798","https://openalex.org/W2122449325","https://openalex.org/W2122606427","https://openalex.org/W2124351063","https://openalex.org/W2127476843","https://openalex.org/W2130973166","https://openalex.org/W2131545754","https://openalex.org/W2136879569","https://openalex.org/W2140107483","https://openalex.org/W2142249333","https://openalex.org/W2142686163","https://openalex.org/W2146290595","https://openalex.org/W2149415648","https://openalex.org/W2157379537","https://openalex.org/W2313959402","https://openalex.org/W2387134834","https://openalex.org/W2401404581","https://openalex.org/W2464983111","https://openalex.org/W2513506562","https://openalex.org/W2518795824","https://openalex.org/W2530132666","https://openalex.org/W2538509698","https://openalex.org/W2749936057","https://openalex.org/W2754086603","https://openalex.org/W2765747110","https://openalex.org/W2772234214","https://openalex.org/W2794904294","https://openalex.org/W2795884710","https://openalex.org/W2884853933","https://openalex.org/W2906482497","https://openalex.org/W2916796547","https://openalex.org/W2920229444","https://openalex.org/W2948219162","https://openalex.org/W2949259316","https://openalex.org/W2952025703","https://openalex.org/W2964935422","https://openalex.org/W2989974442","https://openalex.org/W3016113032","https://openalex.org/W3033365341","https://openalex.org/W3040739689","https://openalex.org/W3048469647","https://openalex.org/W3085917543","https://openalex.org/W3121953277","https://openalex.org/W3123017280","https://openalex.org/W3131193979","https://openalex.org/W3133304149","https://openalex.org/W3148604764","https://openalex.org/W3152888770","https://openalex.org/W3198601125","https://openalex.org/W4200407909","https://openalex.org/W4213025625","https://openalex.org/W4213427769","https://openalex.org/W4223499778","https://openalex.org/W4225722231","https://openalex.org/W4283031078","https://openalex.org/W4310248866","https://openalex.org/W4311934758","https://openalex.org/W4321253950","https://openalex.org/W4361270982","https://openalex.org/W4366395670","https://openalex.org/W4380363165","https://openalex.org/W4380480500","https://openalex.org/W4383497536","https://openalex.org/W4385495310","https://openalex.org/W4385750477","https://openalex.org/W4386223642","https://openalex.org/W4386464312","https://openalex.org/W4388758865","https://openalex.org/W4389430042","https://openalex.org/W4389430791","https://openalex.org/W4400166513"],"related_works":["https://openalex.org/W3121258724","https://openalex.org/W4416420963","https://openalex.org/W3016998638","https://openalex.org/W4412884032","https://openalex.org/W3123017280","https://openalex.org/W4408987165","https://openalex.org/W3135901053","https://openalex.org/W7166651078","https://openalex.org/W4307410854","https://openalex.org/W7134917825"],"abstract_inverted_index":{"ABSTRACT":[0],"Environmental":[1],"DNA":[2,23],"metabarcoding":[3,82,113,202],"has":[4],"revolutionized":[5],"ecological":[6],"surveys":[7],"of":[8,29,36,47,69,125,139,175,187],"natural":[9],"systems.":[10],"By":[11],"amplifying":[12],"and":[13,41,49,58,73,101,110,117,136,159,185],"sequencing":[14],"small":[15],"gene":[16],"fragments":[17],"from":[18,112,156,162],"environmental":[19],"samples":[20],"containing":[21],"complex":[22],"mixtures,":[24],"scientists":[25],"are":[26],"now":[27],"capable":[28,124],"exploring":[30],"biodiversity":[31],"patterns":[32],"across":[33],"the":[34,45,65,137,183],"tree":[35],"life":[37],"in":[38,80,200,215],"a":[39,121,157,172],"time-efficient":[40],"cost-effective":[42],"manner.":[43],"However,":[44],"accuracy":[46,184],"species":[48],"haplotype":[50],"identification":[51],"can":[52],"be":[53],"compromised":[54],"by":[55],"sequence":[56,130],"artefacts":[57,70,109,176],"pseudogenes.":[59],"Despite":[60],"various":[61,146],"strategies":[62],"developed":[63],"over":[64],"years,":[66],"effective":[67],"removal":[68],"remains":[71],"challenging":[72],"inconsistent":[74],"data":[75,114,148,198],"reporting":[76,209],"standards":[77],"hinder":[78],"reproducibility":[79],"eDNA":[81,155,201],"experiments.":[83],"To":[84],"address":[85],"these":[86],"issues,":[87],"we":[88],"introduce":[89],"tombRaider":[90,119,144,169],",":[91],"an":[92,211],"open-source":[93],"command":[94],"line":[95],"software":[96,193],"program":[97,194],"(":[98,104],"https://github.com/gjeunen/tombRaider":[99],")":[100,106],"R":[102],"package":[103],"https://github.com/gjeunen/tombRaider_R":[105],"to":[107,207],"remove":[108],"pseudogenes":[111],"post":[115],"clustering":[116],"denoising.":[118],"features":[120],"modular":[122],"algorithm":[123],"evaluating":[126],"multiple":[127],"criteria,":[128],"including":[129,150],"similarity,":[131],"co-occurrence":[132],"patterns,":[133],"taxonomic":[134],"assignment,":[135],"presence":[138],"stop":[140],"codons.":[141],"We":[142],"validated":[143],"using":[145],"published":[147],"sets,":[149],"mock":[151],"invertebrate":[152],"communities,":[153],"air":[154],"zoo,":[158],"salmon":[160],"haplotypes":[161],"aquatic":[163],"eDNA.":[164],"Our":[165],"results":[166],"demonstrate":[167],"that":[168],"effectively":[170],"removed":[171],"higher":[173],"proportion":[174],"while":[177],"retaining":[178],"authentic":[179],"sequences,":[180],"thus":[181],"enhancing":[182],"reliability":[186],"eDNA-derived":[188],"diversity":[189],"metrics.":[190],"This":[191],"user-friendly":[192],"not":[195],"only":[196],"improves":[197],"quality":[199],"studies,":[203],"but":[204],"also":[205],"contributes":[206],"standardised":[208],"practices,":[210],"aspect":[212],"currently":[213],"lacking":[214],"this":[216],"emerging":[217],"research":[218],"field.":[219]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":1}],"updated_date":"2026-11-10T11:39:43.021295","created_date":"2024-08-30T00:00:00"}
