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| { | |
| "prediction": { | |
| "top_genus": "Achromobacter", | |
| "top_probability": 0.765628457069397, | |
| "top2_probability": 0.1566140204668045, | |
| "margin": 0.6090144366025925, | |
| "confidence": "Medium", | |
| "distinctness": "Very distinct", | |
| "temperature": 1.0633858442306519, | |
| "ranked_genera": [ | |
| { | |
| "rank": 1, | |
| "genus": "Achromobacter", | |
| "probability": 0.765628457069397 | |
| }, | |
| { | |
| "rank": 2, | |
| "genus": "Pseudomonas", | |
| "probability": 0.1566140204668045 | |
| }, | |
| { | |
| "rank": 3, | |
| "genus": "Aeromonas", | |
| "probability": 0.022187551483511925 | |
| }, | |
| { | |
| "rank": 4, | |
| "genus": "Shewanella", | |
| "probability": 0.007534932345151901 | |
| }, | |
| { | |
| "rank": 5, | |
| "genus": "Cedecea", | |
| "probability": 0.006798446644097567 | |
| }, | |
| { | |
| "rank": 6, | |
| "genus": "Flavobacterium", | |
| "probability": 0.004813352599740028 | |
| }, | |
| { | |
| "rank": 7, | |
| "genus": "Chromobacterium", | |
| "probability": 0.0027038289699703455 | |
| }, | |
| { | |
| "rank": 8, | |
| "genus": "Alcaligenes", | |
| "probability": 0.002493914682418108 | |
| }, | |
| { | |
| "rank": 9, | |
| "genus": "Burkholderia", | |
| "probability": 0.002283460693433881 | |
| }, | |
| { | |
| "rank": 10, | |
| "genus": "Kluyvera", | |
| "probability": 0.0016741218278184533 | |
| } | |
| ], | |
| "provided_fields": [ | |
| "Gram Stain", | |
| "Shape", | |
| "Catalase", | |
| "Oxidase", | |
| "Motility", | |
| "Indole", | |
| "Citrate", | |
| "Urease", | |
| "Growth Temperature", | |
| "Media Grown On" | |
| ], | |
| "missing_fields": [ | |
| "Colony Morphology", | |
| "Haemolysis", | |
| "Haemolysis Type", | |
| "Motility Type", | |
| "Capsule", | |
| "Spore Formation", | |
| "Oxygen Requirement", | |
| "Methyl Red", | |
| "VP", | |
| "H2S", | |
| "Lactose Fermentation", | |
| "Glucose Fermentation", | |
| "Sucrose Fermentation", | |
| "Nitrate Reduction", | |
| "Lysine Decarboxylase", | |
| "Ornithine Decarboxylase", | |
| "Arginine dihydrolase", | |
| "Gelatin Hydrolysis", | |
| "Esculin Hydrolysis", | |
| "DNase", | |
| "ONPG", | |
| "NaCl Tolerant (>=6%)", | |
| "Lipase Test", | |
| "Xylose Fermentation", | |
| "Rhamnose Fermentation", | |
| "Mannitol Fermentation", | |
| "Sorbitol Fermentation", | |
| "Maltose Fermentation", | |
| "Arabinose Fermentation", | |
| "Raffinose Fermentation", | |
| "Inositol Fermentation", | |
| "Trehalose Fermentation", | |
| "Coagulase", | |
| "TSI Pattern", | |
| "Gas Production" | |
| ], | |
| "unknown_input_fields_ignored": [], | |
| "unknown_model_tokens": [], | |
| "num_unknown_model_tokens": 0, | |
| "num_provided_fields": 10, | |
| "num_model_tokens": 37, | |
| "note": "This is a phenotype-based genus prediction, not a confirmed laboratory identification." | |
| }, | |
| "recommendations": { | |
| "current_prediction": { | |
| "top_genus": "Achromobacter", | |
| "top_probability": 0.765628457069397, | |
| "top2_probability": 0.1566140204668045, | |
| "margin": 0.6090144366025925, | |
| "confidence": "Medium", | |
| "distinctness": "Very distinct", | |
| "temperature": 1.0633858442306519, | |
| "ranked_genera": [ | |
| { | |
| "rank": 1, | |
| "genus": "Achromobacter", | |
| "probability": 0.765628457069397 | |
| }, | |
| { | |
| "rank": 2, | |
| "genus": "Pseudomonas", | |
| "probability": 0.1566140204668045 | |
| }, | |
| { | |
| "rank": 3, | |
| "genus": "Aeromonas", | |
| "probability": 0.022187551483511925 | |
| }, | |
| { | |
| "rank": 4, | |
| "genus": "Shewanella", | |
| "probability": 0.007534932345151901 | |
| }, | |
| { | |
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| "genus": "Cedecea", | |
| "probability": 0.006798446644097567 | |
| }, | |
| { | |
| "rank": 6, | |
| "genus": "Flavobacterium", | |
| "probability": 0.004813352599740028 | |
| }, | |
| { | |
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| "genus": "Chromobacterium", | |
| "probability": 0.0027038289699703455 | |
| }, | |
| { | |
| "rank": 8, | |
| "genus": "Alcaligenes", | |
| "probability": 0.002493914682418108 | |
| }, | |
| { | |
| "rank": 9, | |
| "genus": "Burkholderia", | |
| "probability": 0.002283460693433881 | |
| }, | |
| { | |
| "rank": 10, | |
| "genus": "Kluyvera", | |
| "probability": 0.0016741218278184533 | |
| }, | |
| { | |
| "rank": 11, | |
| "genus": "Ralstonia", | |
| "probability": 0.001408822019584477 | |
| }, | |
| { | |
| "rank": 12, | |
| "genus": "Sphingomonas", | |
| "probability": 0.001168002374470234 | |
| }, | |
| { | |
| "rank": 13, | |
| "genus": "Comamonas", | |
| "probability": 0.0011530814226716757 | |
| }, | |
| { | |
| "rank": 14, | |
| "genus": "Acidovorax", | |
| "probability": 0.0011509660398587584 | |
| }, | |
| { | |
| "rank": 15, | |
| "genus": "Helicobacter", | |
| "probability": 0.0009738102089613676 | |
| }, | |
| { | |
| "rank": 16, | |
| "genus": "Capnocytophaga", | |
| "probability": 0.0008438320946879685 | |
| }, | |
| { | |
| "rank": 17, | |
| "genus": "Azotobacter", | |
| "probability": 0.0008315237355418503 | |
| }, | |
| { | |
| "rank": 18, | |
| "genus": "Brevibacterium", | |
| "probability": 0.0008254371932707727 | |
| }, | |
| { | |
| "rank": 19, | |
| "genus": "Actinobacillus", | |
| "probability": 0.0005930666229687631 | |
| }, | |
| { | |
| "rank": 20, | |
| "genus": "Cupriavidus", | |
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| }, | |
| { | |
| "rank": 21, | |
| "genus": "Weissella", | |
| "probability": 0.000580138002987951 | |
| }, | |
| { | |
| "rank": 22, | |
| "genus": "Saccharopolyspora", | |
| "probability": 0.0005430192686617374 | |
| }, | |
| { | |
| "rank": 23, | |
| "genus": "Bordetella", | |
| "probability": 0.0005390445585362613 | |
| }, | |
| { | |
| "rank": 24, | |
| "genus": "Fusobacterium", | |
| "probability": 0.00048635673010721803 | |
| }, | |
| { | |
| "rank": 25, | |
| "genus": "Citrobacter", | |
| "probability": 0.00047227219329215586 | |
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| { | |
| "rank": 26, | |
| "genus": "Anaerococcus", | |
| "probability": 0.0004585952847264707 | |
| }, | |
| { | |
| "rank": 27, | |
| "genus": "Cutibacterium", | |
| "probability": 0.0004453144210856408 | |
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| { | |
| "rank": 28, | |
| "genus": "Bilophila", | |
| "probability": 0.00042611098615452647 | |
| }, | |
| { | |
| "rank": 29, | |
| "genus": "Streptomyces", | |
| "probability": 0.0003901527961716056 | |
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| { | |
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| "genus": "Paenibacillus", | |
| "probability": 0.00038164755096659064 | |
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| { | |
| "rank": 31, | |
| "genus": "Serratia", | |
| "probability": 0.00035461378865875304 | |
| }, | |
| { | |
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| "genus": "Porphyromonas", | |
| "probability": 0.0003520181344356388 | |
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| { | |
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| "genus": "Clostridioides", | |
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| { | |
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| "genus": "Elizabethkingia", | |
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| { | |
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| "genus": "Vibrio", | |
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| { | |
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| "genus": "Massilia", | |
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| }, | |
| { | |
| "rank": 37, | |
| "genus": "Clostridium", | |
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| }, | |
| { | |
| "rank": 38, | |
| "genus": "Borrelia", | |
| "probability": 0.0002865668211597949 | |
| }, | |
| { | |
| "rank": 39, | |
| "genus": "Peptoniphilus", | |
| "probability": 0.00028031988767907023 | |
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| { | |
| "rank": 40, | |
| "genus": "Leifsonia", | |
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| }, | |
| { | |
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| "genus": "Legionella", | |
| "probability": 0.00027420910191722214 | |
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| { | |
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| "genus": "Cellulomonas", | |
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| { | |
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| "genus": "Leptospira", | |
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| }, | |
| { | |
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| "genus": "Campylobacter", | |
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| { | |
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| "genus": "Raoultella", | |
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| }, | |
| { | |
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| "genus": "Eikenella", | |
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| { | |
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| "genus": "Candida", | |
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| { | |
| "rank": 48, | |
| "genus": "Streptococcus", | |
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| { | |
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| { | |
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| { | |
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| "genus": "Peptostreptococcus", | |
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| { | |
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| { | |
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| "genus": "Arcanobacterium", | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| { | |
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| "rank": 120, | |
| "genus": "Leuconostoc", | |
| "probability": 2.3228056306834333e-05 | |
| }, | |
| { | |
| "rank": 121, | |
| "genus": "Klebsiella", | |
| "probability": 1.94731564988615e-05 | |
| }, | |
| { | |
| "rank": 122, | |
| "genus": "Psychrobacter", | |
| "probability": 1.4947613635740709e-05 | |
| } | |
| ], | |
| "provided_fields": [ | |
| "Gram Stain", | |
| "Shape", | |
| "Catalase", | |
| "Oxidase", | |
| "Motility", | |
| "Indole", | |
| "Citrate", | |
| "Urease", | |
| "Growth Temperature", | |
| "Media Grown On" | |
| ], | |
| "missing_fields": [ | |
| "Colony Morphology", | |
| "Haemolysis", | |
| "Haemolysis Type", | |
| "Motility Type", | |
| "Capsule", | |
| "Spore Formation", | |
| "Oxygen Requirement", | |
| "Methyl Red", | |
| "VP", | |
| "H2S", | |
| "Lactose Fermentation", | |
| "Glucose Fermentation", | |
| "Sucrose Fermentation", | |
| "Nitrate Reduction", | |
| "Lysine Decarboxylase", | |
| "Ornithine Decarboxylase", | |
| "Arginine dihydrolase", | |
| "Gelatin Hydrolysis", | |
| "Esculin Hydrolysis", | |
| "DNase", | |
| "ONPG", | |
| "NaCl Tolerant (>=6%)", | |
| "Lipase Test", | |
| "Xylose Fermentation", | |
| "Rhamnose Fermentation", | |
| "Mannitol Fermentation", | |
| "Sorbitol Fermentation", | |
| "Maltose Fermentation", | |
| "Arabinose Fermentation", | |
| "Raffinose Fermentation", | |
| "Inositol Fermentation", | |
| "Trehalose Fermentation", | |
| "Coagulase", | |
| "TSI Pattern", | |
| "Gas Production" | |
| ], | |
| "unknown_input_fields_ignored": [], | |
| "unknown_model_tokens": [], | |
| "num_unknown_model_tokens": 0, | |
| "num_provided_fields": 10, | |
| "num_model_tokens": 37, | |
| "note": "This is a phenotype-based genus prediction, not a confirmed laboratory identification." | |
| }, | |
| "baseline_entropy_bits": 1.3646623438326304, | |
| "top_competing_genera": [ | |
| "Achromobacter", | |
| "Pseudomonas", | |
| "Aeromonas", | |
| "Shewanella", | |
| "Cedecea" | |
| ], | |
| "confirmation_recommendations": [ | |
| { | |
| "field": "Mannitol Fermentation", | |
| "confirmation_score": 1.2976372225242045, | |
| "discriminatory_score": 0.4123629903642269, | |
| "model_information_gain_bits": 1.1395864760048882, | |
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| "expected_entropy_after_bits": 0.22507586782774225, | |
| "baseline_top_probability": 0.7656283786780969, | |
| "expected_top_probability_after": 0.9738432722881472, | |
| "top_probability_gain": 0.2082148936100503, | |
| "baseline_margin": 0.609014374246716, | |
| "expected_margin_after": 0.9638810337738656, | |
| "margin_gain": 0.3548666595271496, | |
| "top_prediction_stability_probability": 0.9422998009289163, | |
| "challenge_rate": 0.0577001990710837, | |
| "simulated_outcome_diversity": 0.31824709711962335, | |
| "simulated_outcome_distribution": { | |
| "Achromobacter": 0.9422998009289163, | |
| "Aeromonas": 0.05770019907108377 | |
| }, | |
| "empirical_information_gain_bits": 0.15634892145545765, | |
| "empirical_pairwise_tv_separation": 0.17013993860396892, | |
| "empirical_value_balance": 0.17108663923383502, | |
| "empirical_prior_entropy_bits": 0.9174580804303346, | |
| "empirical_expected_posterior_entropy_bits": 0.761109158974877, | |
| "empirical_value_probabilities": { | |
| "Negative": 0.9595136438395132, | |
| "Positive": 0.033594862829663015, | |
| "Variable": 0.006891493330823859 | |
| }, | |
| "empirical_posterior_examples": [ | |
| { | |
| "value": "Negative", | |
| "estimated_value_probability": 0.9595136438395132, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.8229542593791397, | |
| "posterior_entropy_bits": 0.7291093007884693, | |
| "posterior_distribution": [ | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.8229542593791397 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.1683819437752659 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.007382576340354635 | |
| }, | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.0012094724946304712 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 7.174801060942011e-05 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Positive", | |
| "estimated_value_probability": 0.033594862829663015, | |
| "posterior_top_genus": "Aeromonas", | |
| "posterior_top_probability": 0.611634328921304, | |
| "posterior_entropy_bits": 1.5512740082417629, | |
| "posterior_distribution": [ | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.611634328921304 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.2069710104238548 | |
| }, | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.13279469121166745 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.02657022463873492 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.022029744804438787 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Variable", | |
| "estimated_value_probability": 0.006891493330823859, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.6473516292629276, | |
| "posterior_entropy_bits": 1.364580802521858, | |
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| "genus": "Achromobacter", | |
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| }, | |
| { | |
| "genus": "Aeromonas", | |
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| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.12952534512355415 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.009989590324373241 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.005113870234131977 | |
| } | |
| ] | |
| } | |
| ], | |
| "evidence_records_among_top_genera": 253, | |
| "evidence_factor": 0.9702518455304789, | |
| "max_outcome_weight": 0.9422998009289163, | |
| "candidate_values": [ | |
| { | |
| "value": "Negative", | |
| "estimated_outcome_weight": 0.9422998009289163, | |
| "top_genus_after": "Achromobacter", | |
| "top_probability_after": 0.991159975528717, | |
| "margin_after": 0.9889321657828987, | |
| "entropy_after": 0.11316715835950687, | |
| "top5_after": [ | |
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| "genus": "Achromobacter", | |
| "probability": 0.991159975528717 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.0022278097458183765 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.001184348133392632 | |
| }, | |
| { | |
| "genus": "Flavobacterium", | |
| "probability": 0.0008385276887565851 | |
| }, | |
| { | |
| "genus": "Alcaligenes", | |
| "probability": 0.0007239419501274824 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Positive", | |
| "estimated_outcome_weight": 0.048753372859548984, | |
| "top_genus_after": "Aeromonas", | |
| "top_probability_after": 0.7357893586158752, | |
| "margin_after": 0.6150508150458336, | |
| "entropy_after": 1.8732376463460982, | |
| "top5_after": [ | |
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| "genus": "Aeromonas", | |
| "probability": 0.7357893586158752 | |
| }, | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.12073854357004166 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.02433757670223713 | |
| }, | |
| { | |
| "genus": "Ralstonia", | |
| "probability": 0.00993148423731327 | |
| }, | |
| { | |
| "genus": "Azotobacter", | |
| "probability": 0.00796697847545147 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Variable", | |
| "estimated_outcome_weight": 0.00894682621153479, | |
| "top_genus_after": "Aeromonas", | |
| "top_probability_after": 0.44724664092063904, | |
| "margin_after": 0.22632327675819397, | |
| "entropy_after": 3.030328628947584, | |
| "top5_after": [ | |
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| "probability": 0.44724664092063904 | |
| }, | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.22092336416244507 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.07557916641235352 | |
| }, | |
| { | |
| "genus": "Chromobacterium", | |
| "probability": 0.06621704995632172 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.03494464233517647 | |
| } | |
| ] | |
| } | |
| ] | |
| }, | |
| { | |
| "field": "TSI Pattern", | |
| "confirmation_score": 1.1974763056615518, | |
| "discriminatory_score": 0.3497471234144619, | |
| "model_information_gain_bits": 1.0577416122227572, | |
| "baseline_entropy_bits": 1.3646623438326304, | |
| "expected_entropy_after_bits": 0.30692073160987327, | |
| "baseline_top_probability": 0.7656283786780969, | |
| "expected_top_probability_after": 0.9514278512296143, | |
| "top_probability_gain": 0.1857994725515174, | |
| "baseline_margin": 0.609014374246716, | |
| "expected_margin_after": 0.9270485211004467, | |
| "margin_gain": 0.31803414685373066, | |
| "top_prediction_stability_probability": 0.9563243938119557, | |
| "challenge_rate": 0.043675606188044336, | |
| "simulated_outcome_diversity": 0.2588980420821155, | |
| "simulated_outcome_distribution": { | |
| "Achromobacter": 0.9563243938119557, | |
| "Aeromonas": 0.04367560618804451 | |
| }, | |
| "empirical_information_gain_bits": 0.14294052485324826, | |
| "empirical_pairwise_tv_separation": 0.17340933998463404, | |
| "empirical_value_balance": 0.2202375177082827, | |
| "empirical_prior_entropy_bits": 0.9174580804303346, | |
| "empirical_expected_posterior_entropy_bits": 0.7745175555770863, | |
| "empirical_value_probabilities": { | |
| "K/K": 0.9475106033658138, | |
| "A/A": 0.02858026541178899, | |
| "K/A": 0.023909131222397195 | |
| }, | |
| "empirical_posterior_examples": [ | |
| { | |
| "value": "K/K", | |
| "estimated_value_probability": 0.9475106033658138, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.8224877991492628, | |
| "posterior_entropy_bits": 0.725941976893527, | |
| "posterior_distribution": [ | |
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| "probability": 0.8224877991492628 | |
| }, | |
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| "genus": "Pseudomonas", | |
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| "genus": "Shewanella", | |
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| }, | |
| { | |
| "genus": "Aeromonas", | |
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| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 9.01646023854344e-05 | |
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| ] | |
| }, | |
| { | |
| "value": "A/A", | |
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| "posterior_top_genus": "Aeromonas", | |
| "posterior_top_probability": 0.5424297941819778, | |
| "posterior_entropy_bits": 1.512462147777838, | |
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| "genus": "Achromobacter", | |
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| "genus": "Cedecea", | |
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| }, | |
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| "value": "K/A", | |
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| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.4024062603891057, | |
| "posterior_entropy_bits": 1.8174338928989764, | |
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| "genus": "Cedecea", | |
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| "genus": "Pseudomonas", | |
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| ] | |
| } | |
| ], | |
| "evidence_records_among_top_genera": 115, | |
| "evidence_factor": 0.8329241894042032, | |
| "max_outcome_weight": 0.9251875296119385, | |
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| "value": "K/K", | |
| "estimated_outcome_weight": 0.9251875296119385, | |
| "top_genus_after": "Achromobacter", | |
| "top_probability_after": 0.9911008477210999, | |
| "margin_after": 0.9887033463455737, | |
| "entropy_after": 0.11295141683415855, | |
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| "probability": 0.9911008477210999 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
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| }, | |
| { | |
| "genus": "Burkholderia", | |
| "probability": 0.001237649586983025 | |
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| "genus": "Shewanella", | |
| "probability": 0.0008262473857030272 | |
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| ] | |
| }, | |
| { | |
| "value": "A/A", | |
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| "top_genus_after": "Aeromonas", | |
| "top_probability_after": 0.5570994019508362, | |
| "margin_after": 0.28191274404525757, | |
| "entropy_after": 2.3578027819104235, | |
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| "genus": "Achromobacter", | |
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| { | |
| "genus": "Burkholderia", | |
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| }, | |
| { | |
| "genus": "Vibrio", | |
| "probability": 0.017762454226613045 | |
| }, | |
| { | |
| "genus": "Capnocytophaga", | |
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| } | |
| ] | |
| }, | |
| { | |
| "value": "K/A", | |
| "estimated_outcome_weight": 0.031136864200017163, | |
| "top_genus_after": "Achromobacter", | |
| "top_probability_after": 0.3257312476634979, | |
| "margin_after": 0.0, | |
| "entropy_after": 3.1936749600834737, | |
| "top5_after": [ | |
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| }, | |
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| "genus": "Aeromonas", | |
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| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.10203090310096741 | |
| }, | |
| { | |
| "genus": "Chromobacterium", | |
| "probability": 0.04893995821475983 | |
| }, | |
| { | |
| "genus": "Bordetella", | |
| "probability": 0.029048599302768707 | |
| } | |
| ] | |
| } | |
| ] | |
| }, | |
| { | |
| "field": "Gas Production", | |
| "confirmation_score": 1.1127627455081968, | |
| "discriminatory_score": 0.31188349849961594, | |
| "model_information_gain_bits": 0.9670620523165905, | |
| "baseline_entropy_bits": 1.3646623438326304, | |
| "expected_entropy_after_bits": 0.3976002915160399, | |
| "baseline_top_probability": 0.7656283786780969, | |
| "expected_top_probability_after": 0.9595153559265656, | |
| "top_probability_gain": 0.1938869772484687, | |
| "baseline_margin": 0.609014374246716, | |
| "expected_margin_after": 0.9467827290727003, | |
| "margin_gain": 0.33776835482598433, | |
| "top_prediction_stability_probability": 0.957803903675399, | |
| "challenge_rate": 0.042196096324600973, | |
| "simulated_outcome_diversity": 0.2522721575193212, | |
| "simulated_outcome_distribution": { | |
| "Achromobacter": 0.957803903675399, | |
| "Aeromonas": 0.04219609632460099 | |
| }, | |
| "empirical_information_gain_bits": 0.1152339710636241, | |
| "empirical_pairwise_tv_separation": 0.13947384692829645, | |
| "empirical_value_balance": 0.1959667548330477, | |
| "empirical_prior_entropy_bits": 0.9174580804303346, | |
| "empirical_expected_posterior_entropy_bits": 0.8022241093667105, | |
| "empirical_value_probabilities": { | |
| "Negative": 0.9534180073464694, | |
| "Positive": 0.034206986011253535, | |
| "Variable": 0.01237500664227712 | |
| }, | |
| "empirical_posterior_examples": [ | |
| { | |
| "value": "Negative", | |
| "estimated_value_probability": 0.9534180073464694, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.8173916423100841, | |
| "posterior_entropy_bits": 0.777824072628976, | |
| "posterior_distribution": [ | |
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| }, | |
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| "genus": "Pseudomonas", | |
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| }, | |
| { | |
| "genus": "Shewanella", | |
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| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.00546596234302335 | |
| }, | |
| { | |
| "genus": "Aeromonas", | |
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| } | |
| ] | |
| }, | |
| { | |
| "value": "Positive", | |
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| "posterior_top_genus": "Aeromonas", | |
| "posterior_top_probability": 0.6176956975249523, | |
| "posterior_entropy_bits": 1.3921655867659535, | |
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| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.052447481119426174 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
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| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.002230570077675137 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Variable", | |
| "estimated_value_probability": 0.01237500664227712, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.7774690036519346, | |
| "posterior_entropy_bits": 1.051380706203088, | |
| "posterior_distribution": [ | |
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| "Negative": 0.9534180073464694, | |
| "Positive": 0.034206986011253535, | |
| "Variable": 0.01237500664227712 | |
| }, | |
| "empirical_posterior_examples": [ | |
| { | |
| "value": "Negative", | |
| "estimated_value_probability": 0.9534180073464694, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.8173916423100841, | |
| "posterior_entropy_bits": 0.777824072628976, | |
| "posterior_distribution": [ | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.8173916423100841 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.16800414118306725 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.008082927912498592 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.00546596234302335 | |
| }, | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.0010553262513267388 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Positive", | |
| "estimated_value_probability": 0.034206986011253535, | |
| "posterior_top_genus": "Aeromonas", | |
| "posterior_top_probability": 0.6176956975249523, | |
| "posterior_entropy_bits": 1.3921655867659535, | |
| "posterior_distribution": [ | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.6176956975249523 | |
| }, | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.28126371850452003 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.052447481119426174 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.046362532773426404 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.002230570077675137 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Variable", | |
| "estimated_value_probability": 0.01237500664227712, | |
| "posterior_top_genus": "Achromobacter", | |
| "posterior_top_probability": 0.7774690036519346, | |
| "posterior_entropy_bits": 1.051380706203088, | |
| "posterior_distribution": [ | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.7774690036519346 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.12815528555829972 | |
| }, | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.08130638477420762 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.0069035855315501765 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.0061657404840078514 | |
| } | |
| ] | |
| } | |
| ], | |
| "evidence_records_among_top_genera": 118, | |
| "evidence_factor": 0.8373981352052642, | |
| "max_outcome_weight": 0.9438128807174433, | |
| "candidate_values": [ | |
| { | |
| "value": "Negative", | |
| "estimated_outcome_weight": 0.9438128807174433, | |
| "top_genus_after": "Achromobacter", | |
| "top_probability_after": 0.9654529094696045, | |
| "margin_after": 0.9540357133373618, | |
| "entropy_after": 0.35759777615257854, | |
| "top5_after": [ | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.9654529094696045 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.01141719613224268 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.005317757371813059 | |
| }, | |
| { | |
| "genus": "Shewanella", | |
| "probability": 0.002785791177302599 | |
| }, | |
| { | |
| "genus": "Burkholderia", | |
| "probability": 0.00197236193343997 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Positive", | |
| "estimated_outcome_weight": 0.04219609632460099, | |
| "top_genus_after": "Aeromonas", | |
| "top_probability_after": 0.9516818523406982, | |
| "margin_after": 0.9459987352602184, | |
| "entropy_after": 0.555165269946046, | |
| "top5_after": [ | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.9516818523406982 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.00568311708047986 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.004267269745469093 | |
| }, | |
| { | |
| "genus": "Kluyvera", | |
| "probability": 0.0029771910049021244 | |
| }, | |
| { | |
| "genus": "Raoultella", | |
| "probability": 0.001874104025773704 | |
| } | |
| ] | |
| }, | |
| { | |
| "value": "Variable", | |
| "estimated_outcome_weight": 0.0139910229579557, | |
| "top_genus_after": "Achromobacter", | |
| "top_probability_after": 0.5826087594032288, | |
| "margin_after": 0.45987822860479355, | |
| "entropy_after": 2.6209017861525097, | |
| "top5_after": [ | |
| { | |
| "genus": "Achromobacter", | |
| "probability": 0.5826087594032288 | |
| }, | |
| { | |
| "genus": "Aeromonas", | |
| "probability": 0.12273053079843521 | |
| }, | |
| { | |
| "genus": "Cedecea", | |
| "probability": 0.10911932587623596 | |
| }, | |
| { | |
| "genus": "Pseudomonas", | |
| "probability": 0.03016701340675354 | |
| }, | |
| { | |
| "genus": "Kluyvera", | |
| "probability": 0.02043743245303631 | |
| } | |
| ] | |
| } | |
| ] | |
| } | |
| ], | |
| "settings": { | |
| "n_recommendations": 5, | |
| "top_competing_genera": 5, | |
| "max_candidate_values_per_field": 8, | |
| "include_context_fields": false | |
| }, | |
| "note": "Confirmation tests strengthen the current top prediction. Discriminatory tests separate the current top competing genera." | |
| } | |
| } |