PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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84851-84900 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1966 | 96.0492 | 98.3718 | 68.1010 | 17115 | 704 | 16736 | 277 | 229 | 82.6715 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7231 | 93.7001 | 99.9475 | 34.6971 | 13148 | 884 | 13337 | 7 | 6 | 85.7143 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8635 | 99.2337 | 98.4961 | 57.7259 | 11396 | 88 | 11396 | 174 | 164 | 94.2529 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8737 | 96.6718 | 99.1058 | 64.7457 | 63176 | 2175 | 62956 | 568 | 465 | 81.8662 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.6456 | 96.4829 | 98.8367 | 71.2472 | 29408 | 1072 | 28971 | 341 | 255 | 74.7801 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9418 | 94.1095 | 99.9498 | 41.0630 | 15721 | 984 | 15938 | 8 | 7 | 87.5000 | |
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | het | 95.5372 | 98.2746 | 92.9482 | 86.2530 | 7803 | 137 | 7803 | 592 | 131 | 22.1284 | |
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 3 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | homalt | 98.0874 | 96.5762 | 99.6467 | 77.5747 | 3949 | 140 | 3949 | 14 | 6 | 42.8571 | |
| ghariani-varprowl | SNP | * | map_l150_m1_e0 | * | 97.5510 | 98.4482 | 96.6701 | 79.2964 | 30134 | 475 | 30134 | 1038 | 222 | 21.3873 | |
| ghariani-varprowl | SNP | * | map_l150_m1_e0 | het | 96.8491 | 98.7368 | 95.0321 | 81.8341 | 19072 | 244 | 19072 | 997 | 197 | 19.7593 | |
| ghariani-varprowl | SNP | * | map_l150_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 20 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l150_m1_e0 | homalt | 98.8738 | 98.1283 | 99.6307 | 72.3027 | 11062 | 211 | 11062 | 41 | 25 | 60.9756 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | * | 97.6045 | 98.4962 | 96.7287 | 80.6842 | 31373 | 479 | 31373 | 1061 | 223 | 21.0179 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | het | 96.9127 | 98.7732 | 95.1210 | 82.9549 | 19886 | 247 | 19886 | 1020 | 198 | 19.4118 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 20 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | homalt | 98.9108 | 98.1879 | 99.6443 | 74.5311 | 11487 | 212 | 11487 | 41 | 25 | 60.9756 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | * | 97.6142 | 98.5067 | 96.7377 | 80.7467 | 31729 | 481 | 31729 | 1070 | 224 | 20.9346 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | het | 96.9234 | 98.7821 | 95.1334 | 83.0282 | 20115 | 248 | 20115 | 1029 | 199 | 19.3392 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 20 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | homalt | 98.9183 | 98.1990 | 99.6482 | 74.5368 | 11614 | 213 | 11614 | 41 | 25 | 60.9756 | |
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | * | 92.9666 | 96.5808 | 89.6132 | 94.6918 | 2062 | 73 | 2062 | 239 | 29 | 12.1339 | |
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | het | 91.3804 | 97.1448 | 86.2618 | 95.0573 | 1463 | 43 | 1463 | 233 | 27 | 11.5880 | |
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | homalt | 97.0827 | 95.2305 | 99.0083 | 93.3038 | 599 | 30 | 599 | 6 | 2 | 33.3333 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | * | 95.4295 | 97.2861 | 93.6425 | 90.9971 | 7026 | 196 | 7026 | 477 | 84 | 17.6101 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | het | 94.1868 | 97.7918 | 90.8381 | 91.9418 | 4650 | 105 | 4650 | 469 | 80 | 17.0576 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 4 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | homalt | 98.0400 | 96.4677 | 99.6644 | 87.9687 | 2376 | 87 | 2376 | 8 | 4 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | * | 95.6186 | 97.4255 | 93.8776 | 91.4090 | 7682 | 203 | 7682 | 501 | 87 | 17.3653 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | het | 94.4212 | 97.9207 | 91.1633 | 92.2470 | 5086 | 108 | 5086 | 493 | 83 | 16.8357 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 5 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | homalt | 98.1474 | 96.6493 | 99.6928 | 88.8202 | 2596 | 90 | 2596 | 8 | 4 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | * | 95.6014 | 97.4208 | 93.8488 | 91.4722 | 7781 | 206 | 7781 | 510 | 89 | 17.4510 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | het | 94.4053 | 97.9293 | 91.1260 | 92.3124 | 5155 | 109 | 5155 | 502 | 85 | 16.9323 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 5 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | homalt | 98.1315 | 96.6152 | 99.6963 | 88.8565 | 2626 | 92 | 2626 | 8 | 4 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_siren | * | 98.7774 | 99.3373 | 98.2237 | 61.6367 | 145259 | 969 | 145263 | 2627 | 430 | 16.3685 | |
| ghariani-varprowl | SNP | * | map_siren | het | 98.3861 | 99.3911 | 97.4013 | 64.9618 | 90437 | 554 | 90440 | 2413 | 303 | 12.5570 | |
| ghariani-varprowl | SNP | * | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 81 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | map_siren | homalt | 99.5027 | 99.3944 | 99.6112 | 54.3239 | 54822 | 334 | 54823 | 214 | 127 | 59.3458 | |
| ghariani-varprowl | SNP | * | segdup | * | 97.8779 | 99.6437 | 96.1737 | 92.2561 | 27967 | 100 | 27975 | 1113 | 70 | 6.2893 | |
| ghariani-varprowl | SNP | * | segdup | het | 96.9575 | 99.5207 | 94.5230 | 93.2841 | 17234 | 83 | 17241 | 999 | 5 | 0.5005 | |
| ghariani-varprowl | SNP | * | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 7 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | segdup | homalt | 99.4257 | 99.9069 | 98.9491 | 89.5722 | 10733 | 10 | 10734 | 114 | 65 | 57.0175 | |
| ghariani-varprowl | SNP | * | segdupwithalt | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| ghariani-varprowl | SNP | * | segdupwithalt | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| ghariani-varprowl | SNP | * | segdupwithalt | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | * | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| ghariani-varprowl | SNP | * | tech_badpromoters | * | 96.5732 | 98.7261 | 94.5122 | 54.3175 | 155 | 2 | 155 | 9 | 2 | 22.2222 | |