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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80701-80750 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9819 | 99.9637 | 100.0000 | 35.9582 | 2757 | 1 | 2757 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | HG002complexvar | homalt | 99.9822 | 99.9730 | 99.9913 | 19.9554 | 288496 | 78 | 288478 | 25 | 24 | 96.0000 | |
| bgallagher-sentieon | SNP | tv | * | homalt | 99.9838 | 99.9759 | 99.9918 | 19.9074 | 377032 | 91 | 377017 | 31 | 25 | 80.6452 | |
| dgrover-gatk | SNP | * | * | homalt | 99.9839 | 99.9740 | 99.9938 | 17.2643 | 1179854 | 307 | 1179830 | 73 | 63 | 86.3014 | |
| hfeng-pmm1 | SNP | ti | HG002complexvar | homalt | 99.9845 | 99.9798 | 99.9891 | 18.4732 | 193424 | 39 | 193416 | 21 | 21 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | HG002complexvar | homalt | 99.9848 | 99.9773 | 99.9922 | 18.4374 | 193419 | 44 | 193409 | 15 | 15 | 100.0000 | |
| jli-custom | SNP | * | * | homalt | 99.9850 | 99.9771 | 99.9928 | 17.2570 | 1179891 | 270 | 1179875 | 85 | 66 | 77.6471 | |
| dgrover-gatk | SNP | ti | * | homalt | 99.9851 | 99.9756 | 99.9946 | 15.9219 | 802842 | 196 | 802833 | 43 | 39 | 90.6977 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9852 | 100.0000 | 99.9704 | 37.6087 | 6745 | 0 | 6745 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9852 | 99.9852 | 99.9852 | 34.3808 | 6744 | 1 | 6744 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | * | func_cds | homalt | 99.9857 | 99.9713 | 100.0000 | 22.3138 | 6977 | 2 | 6977 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | func_cds | homalt | 99.9857 | 99.9713 | 100.0000 | 22.0795 | 6977 | 2 | 6977 | 0 | 0 | ||
| egarrison-hhga | SNP | * | func_cds | homalt | 99.9857 | 99.9713 | 100.0000 | 22.5036 | 6977 | 2 | 6977 | 0 | 0 | ||
| eyeh-varpipe | SNP | * | func_cds | homalt | 99.9857 | 99.9713 | 100.0000 | 21.9335 | 6977 | 2 | 6880 | 0 | 0 | ||
| ckim-dragen | SNP | * | func_cds | homalt | 99.9857 | 99.9713 | 100.0000 | 21.8438 | 6977 | 2 | 6977 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | * | homalt | 99.9858 | 99.9781 | 99.9936 | 17.1960 | 1179902 | 259 | 1179878 | 76 | 66 | 86.8421 | |
| raldana-dualsentieon | SNP | tv | * | homalt | 99.9865 | 99.9801 | 99.9928 | 19.7814 | 377048 | 75 | 377042 | 27 | 21 | 77.7778 | |
| jli-custom | SNP | ti | * | homalt | 99.9866 | 99.9797 | 99.9934 | 15.9268 | 802875 | 163 | 802870 | 53 | 42 | 79.2453 | |
| bgallagher-sentieon | SNP | ti | * | homalt | 99.9867 | 99.9791 | 99.9944 | 15.8584 | 802870 | 168 | 802861 | 45 | 41 | 91.1111 | |
| hfeng-pmm2 | SNP | tv | * | homalt | 99.9869 | 99.9862 | 99.9875 | 20.9465 | 377071 | 52 | 377066 | 47 | 24 | 51.0638 | |
| hfeng-pmm1 | SNP | tv | * | homalt | 99.9869 | 99.9841 | 99.9897 | 20.7747 | 377063 | 60 | 377056 | 39 | 21 | 53.8462 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9871 | 100.0000 | 99.9743 | 59.4747 | 3887 | 0 | 3887 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9875 | 99.9749 | 100.0000 | 34.3760 | 3986 | 1 | 3986 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9875 | 100.0000 | 99.9749 | 33.2441 | 3987 | 0 | 3987 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9875 | 99.9749 | 100.0000 | 34.7199 | 3986 | 1 | 3986 | 0 | 0 | ||
| hfeng-pmm3 | SNP | tv | * | homalt | 99.9887 | 99.9854 | 99.9920 | 20.6594 | 377068 | 55 | 377060 | 30 | 18 | 60.0000 | |
| raldana-dualsentieon | SNP | * | * | homalt | 99.9888 | 99.9827 | 99.9949 | 17.0955 | 1179957 | 204 | 1179943 | 60 | 53 | 88.3333 | |
| raldana-dualsentieon | SNP | ti | * | homalt | 99.9899 | 99.9839 | 99.9959 | 15.7711 | 802909 | 129 | 802901 | 33 | 32 | 96.9697 | |
| hfeng-pmm2 | SNP | * | * | homalt | 99.9900 | 99.9890 | 99.9910 | 18.1427 | 1180031 | 130 | 1180018 | 106 | 72 | 67.9245 | |
| hfeng-pmm2 | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 20.6798 | 5274 | 1 | 5274 | 0 | 0 | ||
| hfeng-pmm1 | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 20.7037 | 5274 | 1 | 5274 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 20.5962 | 5274 | 1 | 5274 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 19.3825 | 5274 | 1 | 5274 | 0 | 0 | ||
| hfeng-pmm1 | SNP | * | * | homalt | 99.9908 | 99.9886 | 99.9929 | 18.0449 | 1180027 | 134 | 1180013 | 84 | 56 | 66.6667 | |
| hfeng-pmm2 | SNP | ti | * | homalt | 99.9915 | 99.9903 | 99.9927 | 16.7561 | 802960 | 78 | 802952 | 59 | 48 | 81.3559 | |
| hfeng-pmm3 | SNP | * | * | homalt | 99.9916 | 99.9889 | 99.9942 | 17.9575 | 1180030 | 131 | 1180013 | 68 | 45 | 66.1765 | |
| hfeng-pmm1 | SNP | ti | * | homalt | 99.9926 | 99.9908 | 99.9944 | 16.6970 | 802964 | 74 | 802957 | 45 | 35 | 77.7778 | |
| hfeng-pmm1 | SNP | * | func_cds | homalt | 99.9928 | 99.9857 | 100.0000 | 22.0596 | 6978 | 1 | 6978 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | func_cds | homalt | 99.9928 | 99.9857 | 100.0000 | 21.9899 | 6978 | 1 | 6978 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | func_cds | homalt | 99.9928 | 99.9857 | 100.0000 | 22.0422 | 6978 | 1 | 6978 | 0 | 0 | ||
| raldana-dualsentieon | SNP | * | func_cds | homalt | 99.9928 | 99.9857 | 100.0000 | 20.6414 | 6978 | 1 | 6978 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | * | homalt | 99.9929 | 99.9905 | 99.9953 | 16.6242 | 802962 | 76 | 802953 | 38 | 27 | 71.0526 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.8571 | 3 | 0 | 3 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l150_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 96.1538 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l150_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 96.2963 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l250_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.8571 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l250_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.8571 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l250_m2_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 97.7273 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l250_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.8571 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l250_m2_e1 | homalt | 100.0000 | 100.0000 | 100.0000 | 97.7273 | 1 | 0 | 1 | 0 | 0 | ||