{"id":"W2209020362","doi":"10.1186/s12859-015-0840-5","title":"Pathosphere.org: pathogen detection and characterization through a web-based, open source informatics platform","year":2015,"lang":"en","type":"article","venue":"BMC Bioinformatics","topic":"SARS-CoV-2 detection and testing","field":"Medicine","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Infection and Immunity","funders":"Edgewood Chemical Biological Center; Defense Threat Reduction Agency","keywords":"Metagenomics; Computational biology; Computer science; Workflow; Biodefense; Traceability; Upload; Biology; World Wide Web; Database; Genetics; Software engineering; Microbiology","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.003215699,0.002818927,0.001002823,0.004668212,0.001174615,0.002873193,0.003184358,0.001406747,0.01675043],"category_scores_gemma":[0.006083447,0.001057456,0.001428704,0.002133361,0.0009895171,0.005145727,0.005967568,0.002672021,0.02134557],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008665506,"about_ca_system_score_gemma":0.003437279,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002282153,"about_ca_topic_score_gemma":0.002049236,"domain_scores_codex":[0.9980608,0.0002064323,0.0001320289,0.0005741383,0.0007891052,0.0002375559],"domain_scores_gemma":[0.9968784,0.0008538994,0.0004322245,0.0006681776,0.0006014135,0.0005658687],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00347119,0.0009058946,0.01375254,0.002200269,0.0004396241,0.001391868,0.001102095,0.004891736,0.09985688,0.01290262,0.5709809,0.2881044],"study_design_scores_gemma":[0.001320278,0.0008307081,0.02756125,0.0007477542,0.0003091716,0.002639077,0.0005460429,0.1168904,0.09326575,0.0411822,0.7139325,0.0007748742],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.01611764,0.0007712303,0.2473576,0.001245138,0.0003966003,0.001457167,0.07438352,0.6438671,0.01440404],"genre_scores_gemma":[0.08484033,0.00134716,0.4974702,0.002038992,0.0004041668,0.003872299,0.3377089,0.06019313,0.0121249],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.01675043,"threshold_uncertainty_score":0.05603576,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07801965046886242,"score_gpt":0.2946562580478169,"score_spread":0.2166366075789545,"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."}}