PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80701-80750 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | ti | tech_badpromoters | * | 98.8235 | 98.8235 | 98.8235 | 45.1613 | 84 | 1 | 84 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | tech_badpromoters | het | 98.8506 | 97.7273 | 100.0000 | 48.1928 | 43 | 1 | 43 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | tech_badpromoters | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| asubramanian-gatk | SNP | ti | tech_badpromoters | homalt | 98.7952 | 100.0000 | 97.6190 | 41.6667 | 41 | 0 | 41 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | * | * | 98.7904 | 97.7276 | 99.8765 | 24.3508 | 947655 | 22035 | 947577 | 1172 | 61 | 5.2048 | |
| asubramanian-gatk | SNP | tv | * | het | 98.8211 | 97.8557 | 99.8057 | 26.7081 | 579008 | 12688 | 578944 | 1127 | 42 | 3.7267 | |
| asubramanian-gatk | SNP | tv | * | hetalt | 95.7533 | 94.4891 | 97.0519 | 45.7454 | 823 | 48 | 823 | 25 | 2 | 8.0000 | |
| asubramanian-gatk | SNP | tv | * | homalt | 98.7491 | 97.5342 | 99.9946 | 20.2324 | 367824 | 9299 | 367810 | 20 | 17 | 85.0000 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | * | 98.0754 | 96.2442 | 99.9776 | 22.6117 | 236907 | 9245 | 236824 | 53 | 18 | 33.9623 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | het | 98.1875 | 96.4619 | 99.9759 | 22.1458 | 145398 | 5333 | 145329 | 35 | 10 | 28.5714 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | hetalt | 94.3522 | 91.6129 | 97.2603 | 39.0397 | 284 | 26 | 284 | 8 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | homalt | 97.9093 | 95.9142 | 99.9890 | 23.2773 | 91225 | 3886 | 91211 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | * | 98.0032 | 96.5370 | 99.5145 | 49.4980 | 8614 | 309 | 8609 | 42 | 11 | 26.1905 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | het | 98.0320 | 96.4691 | 99.6463 | 55.8548 | 4508 | 165 | 4508 | 16 | 9 | 56.2500 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | hetalt | 95.8824 | 94.5476 | 97.2554 | 25.0447 | 815 | 47 | 815 | 23 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | homalt | 98.5034 | 97.1370 | 99.9088 | 42.9389 | 3291 | 97 | 3286 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | SNP | tv | decoy | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | decoy | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | decoy | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | decoy | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | func_cds | * | 99.5422 | 99.4967 | 99.5877 | 36.6971 | 4349 | 22 | 4348 | 18 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | func_cds | het | 99.4171 | 99.5107 | 99.3236 | 42.1899 | 2644 | 13 | 2643 | 18 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | func_cds | homalt | 99.7352 | 99.4718 | 100.0000 | 25.3304 | 1695 | 9 | 1695 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.8074 | 98.3509 | 99.2681 | 69.2197 | 1491 | 25 | 1492 | 11 | 2 | 18.1818 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6791 | 97.8831 | 99.4882 | 71.3069 | 971 | 21 | 972 | 5 | 2 | 40.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 75.0000 | 0 | 0 | 0 | 6 | 0 | 0.0000 | ||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6169 | 99.2366 | 100.0000 | 64.2366 | 520 | 4 | 520 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0957 | 98.9522 | 99.2395 | 65.0592 | 27388 | 290 | 27403 | 210 | 22 | 10.4762 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9673 | 98.9982 | 98.9364 | 66.6862 | 17392 | 176 | 17395 | 187 | 18 | 9.6257 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 53.3333 | 92.3077 | 37.5000 | 79.6178 | 12 | 1 | 12 | 20 | 1 | 5.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4224 | 98.8809 | 99.9700 | 61.6808 | 9984 | 113 | 9996 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2216 | 97.3921 | 99.0654 | 77.9808 | 14191 | 380 | 14204 | 134 | 16 | 11.9403 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.9134 | 97.0765 | 98.7647 | 80.5287 | 8866 | 267 | 8875 | 111 | 13 | 11.7117 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 60.0000 | 100.0000 | 42.8571 | 84.3049 | 15 | 0 | 15 | 20 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9195 | 97.9163 | 99.9436 | 71.6321 | 5310 | 113 | 5314 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3985 | 98.9521 | 99.8489 | 49.8485 | 1322 | 14 | 1322 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2357 | 98.7135 | 99.7636 | 51.8223 | 844 | 11 | 844 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.6872 | 99.3763 | 100.0000 | 45.8664 | 478 | 3 | 478 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6549 | 99.6320 | 99.6779 | 64.1892 | 2166 | 8 | 2166 | 7 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5315 | 99.5674 | 99.4957 | 65.2740 | 1381 | 6 | 1381 | 7 | 0 | 0.0000 | |