{"id":"W2145061105","doi":"10.1007/978-3-642-20036-6_5","title":"Hapsembler: An Assembler for Highly Polymorphic Genomes","year":2011,"lang":"en","type":"book-chapter","venue":"Lecture notes in computer science","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":39,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Genome; Sequence assembly; Shotgun sequencing; Biology; 1000 Genomes Project; Haplotype; Computational biology; Computer science; Genetics; Gene; Single-nucleotide polymorphism","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":[0.0009060316,0.002748072,0.001523005,0.001810141,0.0008581717,0.001251397,0.002404064,0.001065378,0.02072599],"category_scores_gemma":[0.001693012,0.001933957,0.001395536,0.001825469,0.0003993791,0.001495104,0.001359452,0.003133304,0.02740969],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002820911,"about_ca_system_score_gemma":0.0004764968,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004535695,"about_ca_topic_score_gemma":0.0007287599,"domain_scores_codex":[0.9995341,0.00009185387,0.00004134776,0.0001191691,0.0001758515,0.00003763314],"domain_scores_gemma":[0.9994742,0.0002501631,0.00004362058,0.0000973726,0.00009186272,0.00004283493],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0005424073,0.0001883935,0.0006100025,0.00300513,0.000288719,0.0004959655,0.0004928063,0.006617719,0.1035146,0.01460526,0.405021,0.464618],"study_design_scores_gemma":[0.0002437505,0.0002408122,0.001616757,0.0004469584,0.0002189909,0.002191421,0.0001462773,0.04370967,0.140662,0.06610037,0.7441675,0.0002554646],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.005530193,0.00208586,0.7975522,0.0002296946,0.0007095236,0.0002950311,0.01743535,0.1653516,0.01081054],"genre_scores_gemma":[0.01573384,0.001924567,0.8797067,0.0003855376,0.00016604,0.0007964023,0.05286566,0.03394772,0.01447352],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.02072599,"threshold_uncertainty_score":0.06933534,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02569849703894728,"score_gpt":0.2454557336676768,"score_spread":0.2197572366287296,"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."}}