{"id":"W3170938164","doi":"10.1101/2021.05.27.445905","title":"In-field genetic stock identification of overwintering coho salmon in the Gulf of Alaska: Evaluation of Nanopore sequencing for remote real-time deployment","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Fish Ecology and Management Studies","field":"Environmental Science","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Fisheries and Oceans Canada; University of British Columbia","funders":"Fisheries and Oceans Canada; Pacific Salmon Foundation; Mitacs","keywords":"Nanopore sequencing; Minion; Amplicon; Ion semiconductor sequencing; Computational biology; DNA sequencing; Fishery; Biology; Stock (firearms); Computer science; Genetics; Geography; Gene; Polymerase chain reaction; Archaeology","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001114937,0.0002970279,0.0002613211,0.0003590432,0.0003931417,0.0004883673,0.0004277676,0.0004181682,0.0004937337],"category_scores_gemma":[0.001071453,0.0001436096,0.0001930191,0.0002381429,0.0002273479,0.000331063,0.0004310674,0.0001966182,0.0001549246],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003067355,"about_ca_system_score_gemma":0.0002807541,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01210895,"about_ca_topic_score_gemma":0.01904384,"domain_scores_codex":[0.9995388,0.00009449472,0.000030186,0.0001396412,0.0001537502,0.00004323079],"domain_scores_gemma":[0.999293,0.0001579912,0.0001124225,0.00004657196,0.000317497,0.00007256482],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001672568,0.0004148177,0.3765583,0.0004272547,0.0001929838,0.0003852701,0.0009839901,0.01388524,0.5301243,0.0002504924,0.0004617297,0.07464314],"study_design_scores_gemma":[0.00004315037,0.003796181,0.5850759,0.0001180205,0.0004416314,0.0005471805,0.002987648,0.1156412,0.2869832,0.0004499394,0.003805462,0.0001104975],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9940025,0.0001563119,0.005001801,0.00002672607,0.00001584587,0.00003659326,0.0002550452,0.0000836303,0.0004214408],"genre_scores_gemma":[0.982781,0.0001191754,0.01621666,0.00004405196,0.00000643749,0.00004993103,0.0004301968,0.00001577085,0.0003366944],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01210895,"threshold_uncertainty_score":0.02407694,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02039048558808073,"score_gpt":0.2499705038160782,"score_spread":0.2295800182279975,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}