{"id":"W2127421473","doi":"10.1089/cmb.2013.0042","title":"IDBA-MT: <i>De Novo</i> Assembler for Metatranscriptomic Data Generated from Next-Generation Sequencing Technology","year":2013,"lang":"en","type":"article","venue":"Journal of Computational Biology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":50,"is_retracted":false,"has_abstract":true,"ca_institutions":"Amgen (Canada); University of Toronto","funders":"","keywords":"Contig; Sequence assembly; Computational biology; DNA sequencing; Genome; Biology; Computer science; Transcriptome; Genetics; Gene","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":[0.0002643581,0.0001414365,0.000250131,0.00009777119,0.00009061445,0.00003553256,0.0003849684,0.0001827323,0.00001872956],"category_scores_gemma":[0.0001086203,0.0001234376,0.00008242494,0.00007871722,0.00007505492,0.000006928836,0.00008965214,0.00009875307,0.000004529545],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003048583,"about_ca_system_score_gemma":0.0002820511,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002344631,"about_ca_topic_score_gemma":0.00001647384,"domain_scores_codex":[0.9989439,0.00006996791,0.0004534715,0.0002606901,0.00006609767,0.0002058274],"domain_scores_gemma":[0.9988579,0.00006395537,0.0002841387,0.0002067693,0.0005310711,0.00005622246],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00003158457,0.00002373715,0.001144425,0.000003450305,0.0002945779,9.207056e-7,0.00002272131,0.007173711,0.9852586,0.0002348681,0.003234501,0.002576949],"study_design_scores_gemma":[0.006070449,0.002935473,0.006924969,0.00003679629,0.000442102,0.0005768694,0.0004234078,0.1311147,0.6716205,0.1011006,0.07765321,0.001100909],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8637601,0.003451307,0.1308909,0.001156741,0.0004161662,0.0001548464,0.0001429334,0.000002844482,0.00002421222],"genre_scores_gemma":[0.9236363,0.000226613,0.07401019,0.000639288,0.0008508406,0.00001402712,0.0005894372,0.00001559434,0.00001773783],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.313638,"threshold_uncertainty_score":0.503364,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08796824590738316,"score_gpt":0.2947364766319145,"score_spread":0.2067682307245314,"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."}}