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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53601-53650 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | tv | map_l100_m1_e0 | het | 86.5303 | 76.4416 | 99.6869 | 75.5609 | 11785 | 3632 | 11781 | 37 | 10 | 27.0270 | |
| astatham-gatk | SNP | tv | map_l100_m1_e0 | hetalt | 98.7654 | 97.5610 | 100.0000 | 69.9248 | 40 | 1 | 40 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l100_m1_e0 | homalt | 99.5729 | 99.2591 | 99.8887 | 59.2933 | 8976 | 67 | 8976 | 10 | 6 | 60.0000 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | * | 92.0378 | 87.7579 | 96.7564 | 95.8853 | 3147 | 439 | 3162 | 106 | 17 | 16.0377 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | het | 89.5146 | 84.5190 | 95.1378 | 89.5888 | 1889 | 346 | 1898 | 97 | 13 | 13.4021 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | hetalt | 94.5744 | 91.1290 | 98.2906 | 87.2964 | 113 | 11 | 115 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | homalt | 96.2599 | 93.3170 | 99.3945 | 84.7554 | 1145 | 82 | 1149 | 7 | 3 | 42.8571 | |
| asubramanian-gatk | INDEL | C6_15 | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 91.6667 | 0 | 0 | 0 | 2 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | map_l100_m1_e0 | het | 0.0000 | 0.0000 | 90.0000 | 0 | 0 | 0 | 2 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | map_l100_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| asubramanian-gatk | INDEL | C6_15 | map_l100_m1_e0 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| anovak-vg | SNP | * | map_l100_m1_e0 | * | 84.0947 | 88.8016 | 79.8617 | 69.2688 | 64295 | 8108 | 63514 | 16016 | 3537 | 22.0842 | |
| anovak-vg | SNP | * | map_l100_m1_e0 | het | 80.4155 | 91.0315 | 72.0169 | 72.1565 | 41291 | 4068 | 40830 | 15865 | 3407 | 21.4749 | |
| anovak-vg | SNP | * | map_l100_m1_e0 | hetalt | 0.0000 | 29.2683 | 0.0000 | 0.0000 | 12 | 29 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l100_m1_e0 | homalt | 91.6965 | 85.1461 | 99.3387 | 58.6113 | 22992 | 4011 | 22684 | 151 | 130 | 86.0927 | |
| astatham-gatk | INDEL | C16_PLUS | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l100_m1_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l100_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l100_m1_e0 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | map_l100_m1_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | map_l100_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | map_l100_m1_e0 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | tv | map_l100_m1_e0 | * | 83.4211 | 89.3066 | 78.2634 | 70.1430 | 21881 | 2620 | 21848 | 6068 | 1313 | 21.6381 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | het | 79.8335 | 92.3396 | 70.3109 | 72.6600 | 14236 | 1181 | 14226 | 6007 | 1268 | 21.1087 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | hetalt | 0.0000 | 29.2683 | 0.0000 | 0.0000 | 12 | 29 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l100_m1_e0 | homalt | 91.2106 | 84.4078 | 99.2060 | 60.5879 | 7633 | 1410 | 7622 | 61 | 45 | 73.7705 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | * | 58.0113 | 59.2233 | 56.8479 | 83.7016 | 793 | 546 | 826 | 627 | 447 | 71.2919 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | het | 47.9187 | 38.2239 | 64.2023 | 89.2961 | 297 | 480 | 330 | 184 | 31 | 16.8478 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 0.0000 | 34.0909 | 0.0000 | 0.0000 | 15 | 29 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | homalt | 67.3385 | 92.8571 | 52.8222 | 77.1699 | 481 | 37 | 496 | 443 | 416 | 93.9052 | |
| astatham-gatk | INDEL | * | map_l100_m1_e0 | * | 96.5907 | 95.1478 | 98.0780 | 85.9214 | 3412 | 174 | 3419 | 67 | 17 | 25.3731 | |
| astatham-gatk | INDEL | * | map_l100_m1_e0 | het | 95.1305 | 93.0201 | 97.3389 | 86.8492 | 2079 | 156 | 2085 | 57 | 11 | 19.2982 | |
| astatham-gatk | INDEL | * | map_l100_m1_e0 | hetalt | 95.3586 | 91.1290 | 100.0000 | 86.6040 | 113 | 11 | 114 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l100_m1_e0 | homalt | 99.3081 | 99.4295 | 99.1870 | 83.8625 | 1220 | 7 | 1220 | 10 | 6 | 60.0000 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | * | 84.3963 | 88.5106 | 80.6475 | 68.7475 | 42424 | 5507 | 42052 | 10091 | 2274 | 22.5349 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | het | 80.6718 | 90.3580 | 72.8613 | 71.8309 | 27055 | 2887 | 26845 | 9999 | 2187 | 21.8722 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | hetalt | 0.0000 | 34.4828 | 0.0000 | 0.0000 | 10 | 19 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l100_m1_e0 | homalt | 91.9372 | 85.5178 | 99.3987 | 57.5594 | 15359 | 2601 | 15207 | 92 | 87 | 94.5652 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | * | 54.0541 | 50.0000 | 58.8235 | 80.7547 | 57 | 57 | 60 | 42 | 24 | 57.1429 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | het | 45.4208 | 35.5932 | 62.7451 | 82.9431 | 21 | 38 | 32 | 19 | 5 | 26.3158 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | hetalt | 0.0000 | 45.4545 | 0.0000 | 0.0000 | 10 | 12 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | homalt | 64.7111 | 78.7879 | 54.9020 | 77.9221 | 26 | 7 | 28 | 23 | 19 | 82.6087 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | * | 95.9601 | 96.4584 | 95.4668 | 83.7178 | 3459 | 127 | 3538 | 168 | 48 | 28.5714 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | het | 95.1984 | 96.6443 | 93.7950 | 84.7357 | 2160 | 75 | 2343 | 155 | 39 | 25.1613 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | hetalt | 0.0000 | 83.8710 | 0.0000 | 0.0000 | 104 | 20 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | * | map_l100_m1_e0 | homalt | 98.1520 | 97.3920 | 98.9238 | 81.1132 | 1195 | 32 | 1195 | 13 | 9 | 69.2308 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | * | 98.9183 | 98.8798 | 98.9568 | 83.1237 | 1324 | 15 | 1328 | 14 | 4 | 28.5714 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5836 | 98.3269 | 98.8417 | 84.3252 | 764 | 13 | 768 | 9 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 97.6744 | 95.4545 | 100.0000 | 87.3112 | 42 | 2 | 42 | 0 | 0 | ||