{"id":"W4417466797","doi":"10.1099/acmi.0.001059.v2","title":"Sequenoscope: A Modular Tool for Nanopore Adaptive Sequencing Analytics and Beyond","year":2025,"lang":"","type":"article","venue":"","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph; Public Health Agency of Canada","funders":"Public Health Agency of Canada","keywords":"Pipeline (software); Nanopore sequencing; Sampling (signal processing); Modular design; Adaptive sampling; Visualization; DNA sequencing; Raw data; Tree (set theory)","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":[0.002389992,0.002095179,0.001381832,0.001525397,0.0008582927,0.002096665,0.002707518,0.001203236,0.01804123],"category_scores_gemma":[0.003523867,0.001820371,0.001501433,0.0009309913,0.0004894895,0.002239635,0.002278555,0.002389995,0.01279992],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007131939,"about_ca_system_score_gemma":0.001659769,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00252268,"about_ca_topic_score_gemma":0.003190873,"domain_scores_codex":[0.9988049,0.0001381569,0.0001344523,0.0003724658,0.0004414362,0.0001086403],"domain_scores_gemma":[0.9986772,0.0005324281,0.0001543127,0.0002267785,0.0002645747,0.0001447418],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.003673136,0.0004090792,0.01042141,0.003606316,0.001290623,0.001901672,0.001800104,0.00889315,0.303152,0.01418251,0.3642218,0.2864483],"study_design_scores_gemma":[0.0007270715,0.0005613433,0.01251672,0.0006704424,0.0003161735,0.001874238,0.000334695,0.1522438,0.303467,0.02457045,0.5019773,0.000740794],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.008516967,0.0007373707,0.4925566,0.0003315165,0.0002107551,0.0004235509,0.02202921,0.470574,0.00461994],"genre_scores_gemma":[0.05813587,0.0008288468,0.8014441,0.001220773,0.0001184736,0.002168179,0.0628799,0.06075921,0.01244461],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.01804123,"threshold_uncertainty_score":0.06035388,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01602576165288693,"score_gpt":0.2532367035813616,"score_spread":0.2372109419284746,"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."}}