{"id":"W4320817603","doi":"10.1093/bioinformatics/btad087","title":"Generalizations of the genomic rank distance to indels","year":2023,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genome Rearrangement Algorithms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Natural Sciences and Engineering Research Council of Canada; Foreign, Commonwealth and Development Office; Fundação de Amparo à Pesquisa do Estado de São Paulo; Medical Research Council; Alfred P. Sloan Foundation","keywords":"Indel; Rank (graph theory); Computer science; Genetics; Biology; Computational biology; Mathematics; Combinatorics; Single-nucleotide polymorphism; Gene; Genotype","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001008617,0.00007010646,0.00006866316,0.00004098302,0.0000573882,0.0000113006,0.0002432643,0.0000451267,0.00001028373],"category_scores_gemma":[0.00004902401,0.00005307986,0.00005342529,0.0002998491,0.00003142626,0.000002541643,0.000177266,0.00002403597,0.00007260018],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009722144,"about_ca_system_score_gemma":0.0000400052,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000002897002,"about_ca_topic_score_gemma":0.00000998037,"domain_scores_codex":[0.9994612,0.0000108136,0.0002044606,0.00006696488,0.0001147659,0.0001417483],"domain_scores_gemma":[0.9994766,0.0000035372,0.00009241206,0.0003405472,0.00004940728,0.00003754733],"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":[0.00004409108,0.00008805766,0.02482921,0.0003639729,0.0002623326,9.849475e-7,0.003932688,0.03177345,0.8186846,0.002912293,0.09716909,0.01993918],"study_design_scores_gemma":[0.001730418,0.0003082269,0.1519413,0.00007647476,0.00008137737,0.00001057451,0.001232406,0.03325427,0.2318501,0.0004224145,0.5782232,0.0008691934],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9626412,0.00009051235,0.03313646,0.000397827,0.0003073256,0.0004687896,0.0001146578,0.00002619897,0.002817066],"genre_scores_gemma":[0.9875557,0.0001443969,0.00878691,0.0004326003,0.0001121291,0.00003027189,0.0001549348,0.00002106887,0.002762029],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5868345,"threshold_uncertainty_score":0.2164534,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01347724821007025,"score_gpt":0.2389549226618568,"score_spread":0.2254776744517865,"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."}}