PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73151-73200 / 86044 show all | |||||||||||||||
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.9886 | 98.1155 | 99.8774 | 55.5677 | 2447 | 47 | 2443 | 3 | 1 | 33.3333 | |
| ltrigg-rtg1 | SNP | tv | HG002compoundhet | * | 98.9891 | 98.2741 | 99.7146 | 44.8855 | 8769 | 154 | 8736 | 25 | 5 | 20.0000 | |
| jli-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 98.9891 | 99.0792 | 98.8991 | 83.0903 | 538 | 5 | 539 | 6 | 3 | 50.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9892 | 98.4640 | 99.5201 | 68.3963 | 45000 | 702 | 45000 | 217 | 24 | 11.0599 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9892 | 98.4640 | 99.5201 | 68.3963 | 45000 | 702 | 45000 | 217 | 24 | 11.0599 | |
| ckim-vqsr | SNP | * | * | homalt | 98.9894 | 98.0027 | 99.9961 | 17.7187 | 1156590 | 23571 | 1156567 | 45 | 41 | 91.1111 | |
| hfeng-pmm3 | INDEL | * | map_siren | het | 98.9897 | 98.8243 | 99.1556 | 80.3605 | 4455 | 53 | 4462 | 38 | 4 | 10.5263 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.9899 | 99.3243 | 98.6577 | 85.6868 | 147 | 1 | 147 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 87.2483 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.9899 | 99.3243 | 98.6577 | 87.4685 | 147 | 1 | 147 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 88.6018 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 88.7266 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | segdup | hetalt | 98.9899 | 100.0000 | 98.0000 | 96.0412 | 48 | 0 | 49 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | segdup | homalt | 98.9899 | 98.0000 | 100.0000 | 90.6310 | 49 | 1 | 49 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D6_15 | segdup | homalt | 98.9899 | 98.0000 | 100.0000 | 89.5966 | 49 | 1 | 49 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.9899 | 99.4924 | 98.4925 | 60.5941 | 196 | 1 | 196 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.9899 | 99.3243 | 98.6577 | 87.4685 | 147 | 1 | 147 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 88.6018 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | segdup | hetalt | 98.9899 | 100.0000 | 98.0000 | 96.1774 | 48 | 0 | 49 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | segdup | homalt | 98.9899 | 98.0000 | 100.0000 | 92.1348 | 49 | 1 | 49 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.9899 | 99.3243 | 98.6577 | 87.2758 | 147 | 1 | 147 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.9899 | 99.3243 | 98.6577 | 87.1330 | 147 | 1 | 147 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m1_e0 | * | 98.9903 | 98.7304 | 99.2515 | 81.3277 | 1322 | 17 | 1326 | 10 | 3 | 30.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9905 | 98.3405 | 99.6492 | 44.7855 | 9363 | 158 | 9375 | 33 | 31 | 93.9394 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9917 | 98.3416 | 99.6503 | 72.5659 | 593 | 10 | 570 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | HG002complexvar | * | 98.9919 | 98.4780 | 99.5112 | 54.8986 | 75766 | 1171 | 75523 | 371 | 227 | 61.1860 | |
| ltrigg-rtg2 | SNP | * | map_l125_m2_e0 | * | 98.9920 | 98.1594 | 99.8389 | 61.3454 | 45863 | 860 | 45865 | 74 | 15 | 20.2703 | |
| ndellapenna-hhga | SNP | tv | map_l100_m0_e0 | * | 98.9920 | 98.3490 | 99.6435 | 65.9868 | 10901 | 183 | 10901 | 39 | 17 | 43.5897 | |
| rpoplin-dv42 | INDEL | * | HG002complexvar | * | 98.9923 | 98.6301 | 99.3571 | 63.4999 | 75884 | 1054 | 75884 | 491 | 440 | 89.6130 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m1_e0 | * | 98.9923 | 98.1217 | 99.8786 | 58.7041 | 28784 | 551 | 28785 | 35 | 10 | 28.5714 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9924 | 98.9924 | 98.9924 | 89.0195 | 786 | 8 | 786 | 8 | 4 | 50.0000 | |
| jli-custom | SNP | tv | map_l125_m2_e0 | het | 98.9924 | 98.7933 | 99.1922 | 70.6143 | 10316 | 126 | 10315 | 84 | 21 | 25.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.9925 | 98.5647 | 99.4241 | 53.5139 | 14558 | 212 | 14501 | 84 | 48 | 57.1429 | |
| cchapple-custom | INDEL | * | func_cds | * | 98.9926 | 98.8764 | 99.1091 | 40.8432 | 440 | 5 | 445 | 4 | 2 | 50.0000 | |
| bgallagher-sentieon | SNP | * | map_l125_m1_e0 | het | 98.9928 | 99.3695 | 98.6190 | 74.6006 | 28213 | 179 | 28207 | 395 | 55 | 13.9241 | |
| rpoplin-dv42 | INDEL | * | HG002complexvar | het | 98.9928 | 98.7730 | 99.2136 | 57.1040 | 45645 | 567 | 45545 | 361 | 319 | 88.3657 | |
| ckim-vqsr | SNP | tv | segdup | het | 98.9929 | 98.5625 | 99.4272 | 95.9257 | 5211 | 76 | 5207 | 30 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9932 | 98.5200 | 99.4710 | 64.4487 | 17308 | 260 | 17299 | 92 | 10 | 10.8696 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.9932 | 98.5767 | 99.4132 | 76.4066 | 2424 | 35 | 2372 | 14 | 10 | 71.4286 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e0 | het | 98.9943 | 98.9849 | 99.0036 | 71.3714 | 10336 | 106 | 10334 | 104 | 55 | 52.8846 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9946 | 98.7097 | 99.2811 | 82.7868 | 1377 | 18 | 1381 | 10 | 3 | 30.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.9949 | 98.9848 | 99.0050 | 58.8957 | 195 | 2 | 199 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.9950 | 99.4949 | 98.5000 | 87.1548 | 197 | 1 | 197 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.9950 | 99.4949 | 98.5000 | 87.0801 | 197 | 1 | 197 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.9950 | 99.4949 | 98.5000 | 87.4372 | 197 | 1 | 197 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.9950 | 99.9034 | 98.1030 | 36.7067 | 7240 | 7 | 7240 | 140 | 139 | 99.2857 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.9950 | 99.4949 | 98.5000 | 87.8861 | 197 | 1 | 197 | 3 | 1 | 33.3333 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | homalt | 98.9952 | 98.6820 | 99.3103 | 43.9072 | 1198 | 16 | 1152 | 8 | 5 | 62.5000 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e1 | * | 98.9952 | 99.3740 | 98.6193 | 77.4754 | 11430 | 72 | 11428 | 160 | 25 | 15.6250 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e1 | het | 98.9954 | 98.8167 | 99.1746 | 76.0502 | 12861 | 154 | 12857 | 107 | 68 | 63.5514 | |