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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68401-68450 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4310 | 98.7964 | 96.1027 | 79.7737 | 10671 | 130 | 10702 | 434 | 19 | 4.3779 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.4385 | 98.6779 | 96.2299 | 81.4052 | 6792 | 91 | 6815 | 267 | 17 | 6.3670 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 15.0000 | 100.0000 | 8.1081 | 79.4444 | 3 | 0 | 3 | 34 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8328 | 99.0038 | 96.6891 | 76.0765 | 3876 | 39 | 3884 | 133 | 2 | 1.5038 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.0897 | 98.8283 | 99.3524 | 77.3626 | 6579 | 78 | 6597 | 43 | 9 | 20.9302 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0782 | 98.7966 | 99.3614 | 79.3181 | 4187 | 51 | 4201 | 27 | 8 | 29.6296 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 21.0526 | 100.0000 | 11.7647 | 81.7204 | 2 | 0 | 2 | 15 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.4177 | 98.8829 | 99.9582 | 72.7717 | 2390 | 27 | 2394 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.9023 | 98.7458 | 99.0593 | 82.5203 | 4094 | 52 | 4107 | 39 | 10 | 25.6410 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8815 | 98.4877 | 99.2784 | 83.9265 | 2605 | 40 | 2614 | 19 | 9 | 47.3684 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 24.0000 | 100.0000 | 13.6364 | 80.3571 | 3 | 0 | 3 | 19 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.5646 | 99.1989 | 99.9329 | 79.3662 | 1486 | 12 | 1490 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4475 | 97.1963 | 97.6999 | 61.5897 | 42120 | 1215 | 41925 | 987 | 925 | 93.7183 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1835 | 98.9169 | 97.4610 | 70.8771 | 17626 | 193 | 17235 | 449 | 399 | 88.8641 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1489 | 92.9019 | 99.6311 | 33.4986 | 13036 | 996 | 13232 | 49 | 48 | 97.9592 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8021 | 99.7736 | 95.9069 | 61.4948 | 11458 | 26 | 11458 | 489 | 478 | 97.7505 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.8288 | 92.9433 | 96.7925 | 52.5751 | 3622 | 275 | 4617 | 153 | 140 | 91.5033 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2829 | 94.9045 | 97.7021 | 68.8472 | 894 | 48 | 1233 | 29 | 19 | 65.5172 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.1496 | 91.6793 | 98.8930 | 34.8700 | 2424 | 220 | 2948 | 33 | 31 | 93.9394 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.6161 | 97.7492 | 82.7324 | 63.1469 | 304 | 7 | 436 | 91 | 90 | 98.9011 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.5878 | 96.0095 | 97.1732 | 53.9900 | 14195 | 590 | 14197 | 413 | 388 | 93.9467 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1554 | 98.2906 | 96.0462 | 69.4738 | 4370 | 76 | 4324 | 178 | 168 | 94.3820 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.8385 | 93.1558 | 98.6804 | 28.6536 | 6683 | 491 | 6730 | 90 | 87 | 96.6667 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3969 | 99.2733 | 95.5900 | 55.8480 | 3142 | 23 | 3143 | 145 | 133 | 91.7241 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4101 | 94.7437 | 98.1362 | 57.6003 | 7967 | 442 | 10057 | 191 | 176 | 92.1466 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7783 | 97.2753 | 98.2865 | 69.9578 | 2392 | 67 | 3499 | 61 | 50 | 81.9672 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.8269 | 92.5398 | 99.3561 | 30.5284 | 4416 | 356 | 4938 | 32 | 31 | 96.8750 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.2980 | 98.3871 | 94.2957 | 66.7441 | 1159 | 19 | 1620 | 98 | 95 | 96.9388 | |
| bgallagher-sentieon | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| bgallagher-sentieon | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| bgallagher-sentieon | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| bgallagher-sentieon | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7498 | 97.1281 | 98.3795 | 53.6051 | 21611 | 639 | 21612 | 356 | 342 | 96.0674 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.7864 | 99.1544 | 98.4212 | 63.6442 | 8325 | 71 | 8291 | 133 | 121 | 90.9774 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.2896 | 93.1726 | 99.6223 | 27.3304 | 7615 | 558 | 7650 | 29 | 28 | 96.5517 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2332 | 99.8240 | 96.6922 | 56.9130 | 5671 | 10 | 5671 | 194 | 193 | 99.4845 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.9208 | 96.5506 | 97.2938 | 53.6376 | 14275 | 510 | 14273 | 397 | 386 | 97.2292 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.4461 | 99.1228 | 95.8251 | 69.1792 | 4407 | 39 | 4361 | 190 | 182 | 95.7895 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.4212 | 93.4764 | 99.5575 | 27.4245 | 6706 | 468 | 6750 | 30 | 29 | 96.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2325 | 99.9052 | 94.6990 | 55.6809 | 3162 | 3 | 3162 | 177 | 175 | 98.8701 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.5306 | 93.3042 | 97.8659 | 82.3181 | 641 | 46 | 642 | 14 | 11 | 78.5714 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1978 | 94.7154 | 97.7273 | 88.4393 | 233 | 13 | 215 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.2125 | 91.3158 | 99.4565 | 63.2368 | 347 | 33 | 366 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.5736 | 100.0000 | 89.7059 | 91.5633 | 61 | 0 | 61 | 7 | 6 | 85.7143 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2930 | 95.5286 | 99.1239 | 61.6524 | 8033 | 376 | 8033 | 71 | 62 | 87.3239 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8489 | 98.6987 | 98.9996 | 76.4157 | 2427 | 32 | 2375 | 24 | 15 | 62.5000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.3303 | 92.9589 | 99.9555 | 30.3660 | 4436 | 336 | 4488 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7852 | 99.3209 | 96.2963 | 73.0778 | 1170 | 8 | 1170 | 45 | 45 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.7603 | 96.7298 | 96.7909 | 69.6486 | 3934 | 133 | 3921 | 130 | 111 | 85.3846 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.7830 | 98.8722 | 92.8811 | 83.4809 | 1315 | 15 | 1109 | 85 | 72 | 84.7059 | |