{"id":"W2007767180","doi":"10.2144/05385st01","title":"Management and Visualization of Whole Genome Shotgun Assemblies Using SAM","year":2005,"lang":"en","type":"article","venue":"BioTechniques","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":8,"is_retracted":false,"has_abstract":true,"ca_institutions":"Genome British Columbia","funders":"Michael Smith Health Research BC; Genome British Columbia; Canada's Michael Smith Genome Sciences Centre; Genome Canada","keywords":"Perl; Genome; Shotgun sequencing; Sequence assembly; Visualization; Computational biology; Computer science; Interface (matter); Sequence (biology); Whole genome sequencing; Shotgun; Biology; Database; Programming language; Genetics; Data mining; Operating system; Gene","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":[0.001647505,0.001094192,0.001014861,0.002427906,0.001008378,0.001697023,0.001522922,0.0004852835,0.009855247],"category_scores_gemma":[0.001532648,0.0007698195,0.0007050329,0.001801422,0.0002368615,0.001072676,0.001076266,0.001671093,0.004945155],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002811468,"about_ca_system_score_gemma":0.0005121849,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006523877,"about_ca_topic_score_gemma":0.0008094423,"domain_scores_codex":[0.9993653,0.0001250879,0.00008638298,0.0001754807,0.0001856678,0.0000622004],"domain_scores_gemma":[0.999246,0.0001876816,0.00009117537,0.0002234659,0.0001569754,0.00009472948],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00139014,0.0002201072,0.003204911,0.001537207,0.000250462,0.0009544443,0.001060381,0.00308754,0.7000671,0.006858881,0.05153962,0.2298292],"study_design_scores_gemma":[0.0002407435,0.0002594077,0.01060847,0.0001085775,0.000151888,0.001046865,0.0002799217,0.03736614,0.6638637,0.006222588,0.2796506,0.0002010852],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.04480707,0.001045665,0.7946131,0.0005731824,0.0004289958,0.0004454504,0.02201113,0.1297829,0.006292465],"genre_scores_gemma":[0.05807183,0.0007299092,0.9036152,0.0002081027,0.00009778145,0.001145289,0.02446035,0.007982486,0.003688921],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.009855247,"threshold_uncertainty_score":0.03296906,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01742846397905996,"score_gpt":0.282382099360584,"score_spread":0.2649536353815241,"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."}}