PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6201-6250 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | C1_5 | HG002complexvar | * | 0.0000 | 85.7143 | 0.0000 | 0.0000 | 6 | 1 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | C1_5 | HG002complexvar | het | 0.0000 | 85.7143 | 0.0000 | 0.0000 | 6 | 1 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | C1_5 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | tv | HG002complexvar | * | 97.7258 | 97.1262 | 98.3329 | 22.6263 | 239081 | 7074 | 235589 | 3994 | 2964 | 74.2113 | |
| anovak-vg | SNP | tv | HG002complexvar | het | 97.4369 | 96.9012 | 97.9786 | 22.5474 | 146063 | 4671 | 144347 | 2978 | 2196 | 73.7408 | |
| anovak-vg | SNP | tv | HG002complexvar | hetalt | 0.0000 | 15.8065 | 0.0000 | 0.0000 | 49 | 261 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | HG002complexvar | homalt | 98.3199 | 97.7479 | 98.8987 | 22.7520 | 92969 | 2142 | 91242 | 1016 | 768 | 75.5906 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | * | 58.0984 | 57.1891 | 59.0370 | 52.0780 | 19080 | 14283 | 19360 | 13433 | 12541 | 93.3596 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | het | 44.4856 | 30.2381 | 84.1220 | 66.7223 | 5500 | 12689 | 6204 | 1171 | 683 | 58.3262 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | hetalt | 0.0000 | 36.2109 | 0.0000 | 0.0000 | 625 | 1101 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | HG002complexvar | homalt | 67.3378 | 96.3340 | 51.7586 | 45.0635 | 12955 | 493 | 13156 | 12262 | 11858 | 96.7053 | |
| anovak-vg | SNP | ti | HG002complexvar | * | 97.6154 | 96.7854 | 98.4597 | 17.8294 | 492093 | 16344 | 484655 | 7582 | 6075 | 80.1240 | |
| anovak-vg | SNP | ti | HG002complexvar | het | 97.2372 | 96.4650 | 98.0220 | 17.7484 | 303639 | 11127 | 299610 | 6046 | 4694 | 77.6381 | |
| anovak-vg | SNP | ti | HG002complexvar | hetalt | 0.0000 | 17.3913 | 0.0000 | 0.0000 | 36 | 171 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | HG002complexvar | homalt | 98.2762 | 97.3918 | 99.1768 | 17.9619 | 188418 | 5046 | 185045 | 1536 | 1381 | 89.9089 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | * | 97.0837 | 95.3400 | 98.8924 | 68.3287 | 1248 | 61 | 1250 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | het | 97.3776 | 95.0376 | 99.8358 | 65.4566 | 632 | 33 | 608 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | hetalt | 95.7378 | 92.8358 | 98.8270 | 70.0351 | 311 | 24 | 337 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | homalt | 97.9133 | 98.7055 | 97.1338 | 71.1927 | 305 | 4 | 305 | 9 | 9 | 100.0000 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | * | 98.3380 | 96.7457 | 99.9835 | 17.8536 | 491890 | 16546 | 491830 | 81 | 36 | 44.4444 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | het | 98.4409 | 96.9492 | 99.9794 | 17.3446 | 305163 | 9603 | 305113 | 63 | 21 | 33.3333 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | hetalt | 94.4724 | 90.8213 | 98.4293 | 40.4984 | 188 | 19 | 188 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | homalt | 98.1740 | 96.4210 | 99.9920 | 18.6413 | 186539 | 6924 | 186529 | 15 | 15 | 100.0000 | |
| 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 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | * | 99.4954 | 99.3774 | 99.6137 | 58.2041 | 76459 | 479 | 76328 | 296 | 257 | 86.8243 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | het | 99.6698 | 99.5477 | 99.7922 | 57.6447 | 46003 | 209 | 45633 | 95 | 61 | 64.2105 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | hetalt | 95.7653 | 93.2955 | 98.3694 | 67.9599 | 3451 | 248 | 3680 | 61 | 61 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | homalt | 99.7010 | 99.9186 | 99.4844 | 57.3638 | 27005 | 22 | 27015 | 140 | 135 | 96.4286 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.2899 | 99.4234 | 97.1820 | 55.6903 | 1207 | 7 | 1207 | 35 | 34 | 97.1429 | |
| asubramanian-gatk | SNP | * | HG002complexvar | * | 98.2310 | 96.5837 | 99.9354 | 19.5730 | 728609 | 25772 | 728466 | 471 | 54 | 11.4650 | |
| asubramanian-gatk | SNP | * | HG002complexvar | het | 98.3318 | 96.7914 | 99.9221 | 19.0611 | 450561 | 14936 | 450442 | 351 | 31 | 8.8319 | |
| asubramanian-gatk | SNP | * | HG002complexvar | hetalt | 93.8843 | 91.6129 | 96.2712 | 41.3519 | 284 | 26 | 284 | 11 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | HG002complexvar | homalt | 98.0724 | 96.2540 | 99.9608 | 20.3588 | 277764 | 10810 | 277740 | 109 | 23 | 21.1009 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | * | 97.5846 | 96.7748 | 98.4081 | 58.8477 | 5131 | 171 | 5131 | 83 | 77 | 92.7711 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | het | 98.2617 | 97.2756 | 99.2679 | 59.9547 | 3035 | 85 | 2983 | 22 | 18 | 81.8182 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 93.8487 | 92.3001 | 95.4501 | 48.4274 | 935 | 78 | 986 | 47 | 45 | 95.7447 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.0619 | 99.3157 | 98.8095 | 62.8201 | 1161 | 8 | 1162 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | * | 99.2344 | 98.6572 | 99.8183 | 57.3625 | 32915 | 448 | 32967 | 60 | 50 | 83.3333 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | het | 99.1051 | 98.3342 | 99.8882 | 58.4164 | 17886 | 303 | 17868 | 20 | 13 | 65.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 97.2967 | 95.4229 | 99.2455 | 71.3930 | 1647 | 79 | 1710 | 13 | 11 | 84.6154 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.6538 | 99.5092 | 99.7987 | 52.7938 | 13382 | 66 | 13389 | 27 | 26 | 96.2963 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | * | 97.6558 | 96.4524 | 98.8896 | 58.1164 | 4622 | 170 | 4631 | 52 | 44 | 84.6154 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | het | 98.1220 | 96.6454 | 99.6443 | 60.1594 | 2276 | 79 | 2241 | 8 | 3 | 37.5000 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | INDEL | C1_5 | HG002complexvar | * | 0.0000 | 85.7143 | 0.0000 | 0.0000 | 6 | 1 | 0 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | C1_5 | HG002complexvar | het | 0.0000 | 85.7143 | 0.0000 | 0.0000 | 6 | 1 | 0 | 0 | 0 | ||