File Info

Filename
comparison/aggregated_metrics.csv
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/607f16440c89581e40dbc10bad76fb/comparison/aggregated_metrics.csv
Size
1.8 KB
Task
VARIANT_COMPARISON_TSO500:COMPARE_VARIANTS
Attempt

Content

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vaf_cutoff subset variant_type n_samples n_samples_with_truth_variants truth_variants_total exp_variants_total TP FN FP TN sensitivity sensitivity_95ci_lower sensitivity_95ci_upper ppv ppv_95ci_lower ppv_95ci_upper specificity specificity_95ci_lower specificity_95ci_upper
all hotspot SNV 3 1 2 2 2 0 0 1.0 0.3423802239546494 1.0 1.0 0.3423802239546494 1.0
vaf>=0.05 hotspot SNV 3 1 2 2 2 0 0 1.0 0.3423802239546494 1.0 1.0 0.3423802239546494 1.0
vaf>=0.025 hotspot SNV 3 1 2 2 2 0 0 1.0 0.3423802239546494 1.0 1.0 0.3423802239546494 1.0
all boosted_exome SNV 3 2 31 35 28 3 7 1246526.0 0.9032258064516129 0.7510006140569959 0.9665353560978241 0.8 0.6410838679545052 0.8995755358072957 0.9999943844246402 0.9999884074173145 0.9999972797615254
vaf>=0.05 boosted_exome SNV 3 2 28 28 28 0 0 1246536.0 1.0 0.8793566935605293 1.0 1.0 0.8793566935605293 1.0 1.0 0.9999969183023649 0.9999999999999998
all nonboosted_exome SNV 3 1 1 0 0 1 0 32726.0 0.0 0.0 0.7934506882081973 1.0 0.9998826313018924 0.9999999999999999
vaf>=0.05 nonboosted_exome SNV 3 1 0 0 0 0 0 32727.0 1.0 0.9998826348877672 1.0
vaf>=0.1 nonboosted_exome SNV 3 1 0 0 0 0 0 32727.0 1.0 0.9998826348877672 1.0
all hotspot INDEL 3 0 0 0 0 0 0
vaf>=0.05 hotspot INDEL 3 0 0 0 0 0 0
all boosted_exome INDEL 3 1 1 0 0 1 0 1246563.0 0.0 0.0 0.7934506882081973 1.0 0.9999969183691129 0.9999999999999998
vaf>=0.05 boosted_exome INDEL 3 1 0 0 0 0 0 1246564.0 1.0 0.9999969183715852 1.0
vaf>=0.075 boosted_exome INDEL 3 1 0 0 0 0 0 1246564.0 1.0 0.9999969183715852 1.0
all nonboosted_exome INDEL 3 0 0 0 0 0 0 32727.0 1.0 0.9998826348877672 1.0
vaf>=0.05 nonboosted_exome INDEL 3 0 0 0 0 0 0 32727.0 1.0 0.9998826348877672 1.0
vaf>=0.15 nonboosted_exome INDEL 3 0 0 0 0 0 0 32727.0 1.0 0.9998826348877672 1.0
17 rows