{"id":"W2520464109","doi":"10.1093/bioinformatics/btw597","title":"BOSS: a novel scaffolding algorithm based on an optimized scaffold graph","year":2016,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genome Rearrangement Algorithms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":39,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Saskatchewan","funders":"National Outstanding Youth Science Fund Project of National Natural Science Foundation of China; National Natural Science Foundation of China","keywords":"Boss; Scaffold; Computer science; Contig; Algorithm; Graph; Theoretical computer science; Genome; Database; Engineering; Biology","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000351511,0.0002736492,0.0002026338,0.0001643793,0.0001133389,0.00006614591,0.0003552778,0.0001854533,0.00005646318],"category_scores_gemma":[0.00005531526,0.0001960415,0.0001467116,0.0001556295,0.00008493907,0.00002378164,0.00009051754,0.00004701662,0.00008506131],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003617818,"about_ca_system_score_gemma":0.00008028825,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003669115,"about_ca_topic_score_gemma":0.000001591967,"domain_scores_codex":[0.998565,0.0000263896,0.0003822008,0.0002704384,0.0003187491,0.0004372742],"domain_scores_gemma":[0.9988241,0.00002216652,0.0001627208,0.000689161,0.0001034214,0.0001984592],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.000421066,0.001115382,0.0006939019,0.00017063,0.0003438146,0.000009639845,0.0003307979,0.002520065,0.5404956,0.0003613061,0.007522448,0.4460153],"study_design_scores_gemma":[0.02493139,0.005011867,0.001724171,0.0004964143,0.0002058728,0.00006653381,0.0007416149,0.4953823,0.3728111,0.0002027493,0.09521796,0.003207958],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.07581653,0.00008942605,0.9179114,0.0003307593,0.0004448229,0.0006891969,0.0002352205,0.000128685,0.004353915],"genre_scores_gemma":[0.179425,0.0001629379,0.8172947,0.001269091,0.0004806463,0.00008517815,0.0003455947,0.0000958216,0.0008409825],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.4928623,"threshold_uncertainty_score":0.7994341,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01423703169381154,"score_gpt":0.2406790377023678,"score_spread":0.2264420060085562,"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."}}