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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78151-78200 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | map_l250_m2_e1 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l250_m2_e1 | homalt | 84.0320 | 72.8109 | 99.3418 | 88.4510 | 1979 | 739 | 1962 | 13 | 9 | 69.2308 | |
| astatham-gatk | INDEL | C16_PLUS | map_l250_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l250_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l250_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l250_m2_e1 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | tv | map_l250_m2_e1 | * | 74.0862 | 80.7956 | 68.4057 | 91.5330 | 2356 | 560 | 2347 | 1084 | 260 | 23.9852 | |
| anovak-vg | SNP | tv | map_l250_m2_e1 | het | 71.4817 | 86.2595 | 61.0268 | 91.9453 | 1695 | 270 | 1688 | 1078 | 256 | 23.7477 | |
| anovak-vg | SNP | tv | map_l250_m2_e1 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l250_m2_e1 | homalt | 81.8854 | 69.7674 | 99.0977 | 89.2430 | 660 | 286 | 659 | 6 | 4 | 66.6667 | |
| anovak-vg | INDEL | I16_PLUS | map_l250_m2_e1 | * | 0.0000 | 0.0000 | 90.9091 | 0 | 1 | 0 | 1 | 1 | 100.0000 | ||
| anovak-vg | INDEL | I16_PLUS | map_l250_m2_e1 | het | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| anovak-vg | INDEL | I16_PLUS | map_l250_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I16_PLUS | map_l250_m2_e1 | homalt | 0.0000 | 0.0000 | 87.5000 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| anovak-vg | INDEL | I1_5 | map_l250_m2_e1 | * | 59.7641 | 63.1579 | 56.7164 | 96.7476 | 72 | 42 | 76 | 58 | 33 | 56.8966 | |
| anovak-vg | INDEL | I1_5 | map_l250_m2_e1 | het | 50.5360 | 45.4545 | 56.8966 | 97.7255 | 30 | 36 | 33 | 25 | 3 | 12.0000 | |
| anovak-vg | INDEL | I1_5 | map_l250_m2_e1 | hetalt | 0.0000 | 50.0000 | 0.0000 | 0.0000 | 1 | 1 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l250_m2_e1 | homalt | 69.2187 | 89.1304 | 56.5789 | 95.1592 | 41 | 5 | 43 | 33 | 30 | 90.9091 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | * | 95.4074 | 96.6967 | 94.1520 | 96.3590 | 322 | 11 | 322 | 20 | 4 | 20.0000 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | het | 93.9535 | 95.7346 | 92.2374 | 96.6702 | 202 | 9 | 202 | 17 | 2 | 11.7647 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 97.6378 | 6 | 0 | 6 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.8541 | 98.2759 | 97.4359 | 95.4333 | 114 | 2 | 114 | 3 | 2 | 66.6667 | |
| anovak-vg | SNP | ti | map_l250_m2_e1 | * | 75.8245 | 82.3089 | 70.2872 | 91.6096 | 4178 | 898 | 4161 | 1759 | 398 | 22.6265 | |
| anovak-vg | SNP | ti | map_l250_m2_e1 | het | 72.2384 | 86.6323 | 61.9461 | 92.2704 | 2858 | 441 | 2852 | 1752 | 393 | 22.4315 | |
| anovak-vg | SNP | ti | map_l250_m2_e1 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l250_m2_e1 | homalt | 85.1502 | 74.4357 | 99.4681 | 88.0298 | 1319 | 453 | 1309 | 7 | 5 | 71.4286 | |
| anovak-vg | INDEL | I6_15 | map_l250_m2_e1 | * | 53.3333 | 50.0000 | 57.1429 | 96.8037 | 4 | 4 | 4 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | I6_15 | map_l250_m2_e1 | het | 40.0000 | 40.0000 | 40.0000 | 96.5517 | 2 | 3 | 2 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | I6_15 | map_l250_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I6_15 | map_l250_m2_e1 | homalt | 80.0000 | 66.6667 | 100.0000 | 97.2973 | 2 | 1 | 2 | 0 | 0 | ||
| cchapple-custom | INDEL | * | map_l250_m2_e1 | * | 93.5790 | 95.4955 | 91.7379 | 95.7583 | 318 | 15 | 322 | 29 | 3 | 10.3448 | |
| cchapple-custom | INDEL | * | map_l250_m2_e1 | het | 91.3456 | 94.3128 | 88.5593 | 96.0927 | 199 | 12 | 209 | 27 | 2 | 7.4074 | |
| cchapple-custom | INDEL | * | map_l250_m2_e1 | hetalt | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 6 | 0 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | * | map_l250_m2_e1 | homalt | 97.8355 | 97.4138 | 98.2609 | 94.8546 | 113 | 3 | 113 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l250_m2_e1 | * | 96.0352 | 95.6140 | 96.4602 | 96.4001 | 109 | 5 | 109 | 4 | 2 | 50.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l250_m2_e1 | het | 94.5736 | 92.4242 | 96.8254 | 97.0199 | 61 | 5 | 61 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l250_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 98.1651 | 2 | 0 | 2 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | map_l250_m2_e1 | homalt | 97.8723 | 100.0000 | 95.8333 | 94.7598 | 46 | 0 | 46 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | C1_5 | map_l250_m2_e1 | * | 0.0000 | 0.0000 | 75.0000 | 98.0050 | 0 | 0 | 6 | 2 | 1 | 50.0000 | |
| cchapple-custom | INDEL | C1_5 | map_l250_m2_e1 | het | 0.0000 | 0.0000 | 66.6667 | 98.1595 | 0 | 0 | 4 | 2 | 1 | 50.0000 | |
| cchapple-custom | INDEL | C1_5 | map_l250_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| cchapple-custom | INDEL | C1_5 | map_l250_m2_e1 | homalt | 0.0000 | 0.0000 | 100.0000 | 97.3333 | 0 | 0 | 2 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | map_l250_m2_e1 | * | 98.6646 | 98.9756 | 98.3555 | 89.6132 | 5024 | 52 | 5024 | 84 | 19 | 22.6190 | |
| bgallagher-sentieon | SNP | ti | map_l250_m2_e1 | het | 98.2995 | 98.9997 | 97.6091 | 90.8150 | 3266 | 33 | 3266 | 80 | 16 | 20.0000 | |
| bgallagher-sentieon | SNP | ti | map_l250_m2_e1 | hetalt | 88.8889 | 80.0000 | 100.0000 | 84.6154 | 4 | 1 | 4 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | map_l250_m2_e1 | homalt | 99.3768 | 98.9842 | 99.7725 | 86.1825 | 1754 | 18 | 1754 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e1 | * | 98.1725 | 98.5597 | 97.7884 | 89.4056 | 2874 | 42 | 2874 | 65 | 13 | 20.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e1 | het | 97.6756 | 98.3715 | 96.9895 | 90.4284 | 1933 | 32 | 1933 | 60 | 9 | 15.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e1 | hetalt | 88.8889 | 80.0000 | 100.0000 | 90.9091 | 4 | 1 | 4 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | map_l250_m2_e1 | homalt | 99.2585 | 99.0486 | 99.4692 | 86.2982 | 937 | 9 | 937 | 5 | 4 | 80.0000 | |