PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83101-83150 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | * | segdup | * | 99.1969 | 98.5784 | 99.8232 | 90.3648 | 27668 | 399 | 27662 | 49 | 12 | 24.4898 | |
| astatham-gatk | SNP | * | segdup | het | 98.7752 | 97.7998 | 99.7702 | 91.3893 | 16936 | 381 | 16930 | 39 | 2 | 5.1282 | |
| astatham-gatk | SNP | * | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 96.6825 | 7 | 0 | 7 | 0 | 0 | ||
| astatham-gatk | SNP | * | segdup | homalt | 99.8696 | 99.8324 | 99.9068 | 88.1147 | 10725 | 18 | 10725 | 10 | 10 | 100.0000 | |
| astatham-gatk | SNP | * | segdupwithalt | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | segdupwithalt | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | segdupwithalt | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | tech_badpromoters | * | 97.7492 | 96.8153 | 98.7013 | 49.3421 | 152 | 5 | 152 | 2 | 2 | 100.0000 | |
| astatham-gatk | SNP | * | tech_badpromoters | het | 97.3333 | 94.8052 | 100.0000 | 51.6556 | 73 | 4 | 73 | 0 | 0 | ||
| astatham-gatk | SNP | * | tech_badpromoters | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 47.0588 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| astatham-gatk | SNP | ti | * | * | 99.6161 | 99.2515 | 99.9833 | 17.5605 | 2069900 | 15611 | 2069836 | 345 | 101 | 29.2754 | |
| astatham-gatk | SNP | ti | * | het | 99.3889 | 98.8086 | 99.9762 | 18.5890 | 1266618 | 15273 | 1266563 | 302 | 60 | 19.8675 | |
| astatham-gatk | SNP | ti | * | hetalt | 99.8279 | 99.6564 | 100.0000 | 39.9586 | 580 | 2 | 580 | 0 | 0 | ||
| astatham-gatk | SNP | ti | * | homalt | 99.9764 | 99.9582 | 99.9946 | 15.8604 | 802702 | 336 | 802693 | 43 | 41 | 95.3488 | |
| astatham-gatk | SNP | ti | HG002complexvar | * | 99.2181 | 98.4614 | 99.9866 | 17.7102 | 500613 | 7823 | 500548 | 67 | 41 | 61.1940 | |
| astatham-gatk | SNP | ti | HG002complexvar | het | 98.7599 | 97.5636 | 99.9860 | 17.3084 | 307097 | 7669 | 307042 | 43 | 17 | 39.5349 | |
| astatham-gatk | SNP | ti | HG002complexvar | hetalt | 99.5146 | 99.0338 | 100.0000 | 35.3312 | 205 | 2 | 205 | 0 | 0 | ||
| astatham-gatk | SNP | ti | HG002complexvar | homalt | 99.9545 | 99.9214 | 99.9876 | 18.3169 | 193311 | 152 | 193301 | 24 | 24 | 100.0000 | |
| astatham-gatk | SNP | ti | HG002compoundhet | * | 99.2746 | 98.6669 | 99.8899 | 35.7263 | 17245 | 233 | 17243 | 19 | 18 | 94.7368 | |
| astatham-gatk | SNP | ti | HG002compoundhet | het | 98.7553 | 97.6644 | 99.8709 | 39.9910 | 9283 | 222 | 9281 | 12 | 11 | 91.6667 | |
| astatham-gatk | SNP | ti | HG002compoundhet | hetalt | 99.8270 | 99.6546 | 100.0000 | 21.9215 | 577 | 2 | 577 | 0 | 0 | ||
| astatham-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8783 | 99.9053 | 30.4740 | 7385 | 9 | 7385 | 7 | 7 | 100.0000 | |
| astatham-gatk | SNP | ti | decoy | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | decoy | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | decoy | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | decoy | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | func_cds | * | 99.8730 | 99.7897 | 99.9564 | 22.5679 | 13758 | 29 | 13756 | 6 | 0 | 0.0000 | |
| astatham-gatk | SNP | ti | func_cds | het | 99.8234 | 99.7178 | 99.9293 | 24.2094 | 8480 | 24 | 8478 | 6 | 0 | 0.0000 | |
| astatham-gatk | SNP | ti | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 8 | 0 | 8 | 0 | 0 | ||
| astatham-gatk | SNP | ti | func_cds | homalt | 99.9526 | 99.9052 | 100.0000 | 19.7136 | 5270 | 5 | 5270 | 0 | 0 | ||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0231 | 98.3067 | 99.7501 | 65.5325 | 3193 | 55 | 3193 | 8 | 6 | 75.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.7032 | 97.7767 | 99.6475 | 68.5461 | 1979 | 45 | 1979 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5490 | 99.1830 | 99.9177 | 59.0909 | 1214 | 10 | 1214 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5168 | 99.0808 | 99.9567 | 54.7993 | 27702 | 257 | 27701 | 12 | 5 | 41.6667 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3009 | 98.6611 | 99.9489 | 57.4118 | 17612 | 239 | 17611 | 9 | 2 | 22.2222 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 90.9091 | 83.3333 | 100.0000 | 87.8049 | 5 | 1 | 5 | 0 | 0 | ||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8317 | 99.9703 | 49.2989 | 10085 | 17 | 10085 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5342 | 97.3339 | 99.7644 | 69.1366 | 19057 | 522 | 19057 | 45 | 14 | 31.1111 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 100.0000 | 100.0000 | 100.0000 | 83.0986 | 12 | 0 | 12 | 0 | 0 | ||
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6831 | 99.3940 | 99.9739 | 63.4875 | 11482 | 70 | 11482 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3031 | 98.7158 | 99.8974 | 47.9345 | 2921 | 38 | 2921 | 3 | 1 | 33.3333 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0083 | 98.1431 | 99.8888 | 50.8470 | 1797 | 34 | 1797 | 2 | 0 | 0.0000 | |