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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63151-63200 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | ti | map_l250_m1_e0 | het | 98.1612 | 98.9218 | 97.4121 | 90.4001 | 2936 | 32 | 2936 | 78 | 16 | 20.5128 | |
| bgallagher-sentieon | SNP | ti | map_l250_m2_e0 | het | 98.3066 | 99.0166 | 97.6068 | 90.7462 | 3222 | 32 | 3222 | 79 | 16 | 20.2532 | |
| bgallagher-sentieon | SNP | tv | map_l250_m1_e0 | het | 97.5542 | 98.2093 | 96.9078 | 89.8378 | 1755 | 32 | 1755 | 56 | 8 | 14.2857 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e0 | het | 97.6459 | 98.3505 | 96.9512 | 90.3681 | 1908 | 32 | 1908 | 60 | 9 | 15.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e1 | het | 97.6756 | 98.3715 | 96.9895 | 90.4284 | 1933 | 32 | 1933 | 60 | 9 | 15.0000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 70.1834 | 63.2184 | 78.8732 | 73.6059 | 55 | 32 | 56 | 15 | 14 | 93.3333 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.6329 | 91.4439 | 80.5164 | 60.7373 | 342 | 32 | 343 | 83 | 58 | 69.8795 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 3.0303 | 0.0000 | 0.0000 | 1 | 32 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 47.6401 | 79.3548 | 34.0369 | 66.9573 | 123 | 32 | 129 | 250 | 2 | 0.8000 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m2_e0 | het | 57.4870 | 54.9296 | 60.2941 | 93.6685 | 39 | 32 | 41 | 27 | 5 | 18.5185 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m2_e1 | het | 57.4870 | 54.9296 | 60.2941 | 93.7672 | 39 | 32 | 41 | 27 | 5 | 18.5185 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8174 | 99.8052 | 99.8295 | 60.0496 | 16397 | 32 | 16396 | 28 | 4 | 14.2857 | |
| ckim-gatk | INDEL | * | map_l125_m2_e0 | * | 96.6334 | 98.5428 | 94.7967 | 91.3207 | 2164 | 32 | 2168 | 119 | 11 | 9.2437 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.1189 | 97.4026 | 98.8458 | 61.2336 | 1200 | 32 | 1199 | 14 | 12 | 85.7143 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3847 | 99.1729 | 95.6599 | 68.7214 | 3837 | 32 | 3791 | 172 | 166 | 96.5116 | |
| ckim-dragen | INDEL | I6_15 | HG002complexvar | het | 99.2082 | 98.6412 | 99.7818 | 59.3866 | 2323 | 32 | 2286 | 5 | 4 | 80.0000 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.8223 | 98.1693 | 99.4839 | 59.8527 | 1716 | 32 | 1735 | 9 | 2 | 22.2222 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8416 | 99.9455 | 56.0535 | 20167 | 32 | 20178 | 11 | 11 | 100.0000 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.2515 | 98.6760 | 99.8336 | 71.5436 | 2385 | 32 | 2400 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | homalt | 98.1520 | 97.3920 | 98.9238 | 81.1132 | 1195 | 32 | 1195 | 13 | 9 | 69.2308 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | homalt | 98.2022 | 97.4623 | 98.9533 | 82.2165 | 1229 | 32 | 1229 | 13 | 9 | 69.2308 | |
| cchapple-custom | INDEL | * | map_l100_m2_e1 | homalt | 98.1532 | 97.5020 | 98.8133 | 82.2920 | 1249 | 32 | 1249 | 15 | 11 | 73.3333 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1629 | 97.2003 | 95.1473 | 85.5786 | 1111 | 32 | 1098 | 56 | 6 | 10.7143 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2092 | 97.2342 | 95.2055 | 85.6546 | 1125 | 32 | 1112 | 56 | 6 | 10.7143 | |
| cchapple-custom | INDEL | D1_5 | map_siren | het | 97.0834 | 98.5946 | 95.6177 | 79.2698 | 2245 | 32 | 2291 | 105 | 10 | 9.5238 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 97.2927 | 0.0000 | 0.0000 | 1150 | 32 | 0 | 0 | 0 | ||
| ckim-gatk | SNP | tv | HG002compoundhet | homalt | 99.4517 | 99.0555 | 99.8512 | 42.9154 | 3356 | 32 | 3355 | 5 | 4 | 80.0000 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.5602 | 98.1043 | 80.7085 | 72.3823 | 1656 | 32 | 1686 | 403 | 136 | 33.7469 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.1283 | 97.5299 | 73.9648 | 66.0177 | 1303 | 33 | 1304 | 459 | 12 | 2.6144 | |
| ckim-dragen | INDEL | * | map_l100_m0_e0 | het | 95.6303 | 96.7679 | 94.5192 | 88.5902 | 988 | 33 | 983 | 57 | 4 | 7.0175 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5758 | 99.3915 | 99.7609 | 70.9351 | 5390 | 33 | 5423 | 13 | 4 | 30.7692 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.3735 | 99.2041 | 99.5436 | 81.7204 | 4113 | 33 | 4144 | 19 | 8 | 42.1053 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5758 | 99.3915 | 99.7609 | 70.9351 | 5390 | 33 | 5423 | 13 | 4 | 30.7692 | |
| ckim-gatk | INDEL | * | map_l100_m2_e0 | het | 96.1386 | 98.5696 | 93.8246 | 90.4219 | 2274 | 33 | 2279 | 150 | 14 | 9.3333 | |
| ckim-gatk | INDEL | * | map_l100_m2_e1 | het | 96.1964 | 98.5915 | 93.9148 | 90.4620 | 2310 | 33 | 2315 | 150 | 14 | 9.3333 | |
| ckim-gatk | INDEL | * | map_l125_m2_e1 | * | 96.6536 | 98.5169 | 94.8596 | 91.3812 | 2192 | 33 | 2196 | 119 | 11 | 9.2437 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | het | 99.0142 | 98.9423 | 99.0862 | 59.4709 | 3087 | 33 | 3036 | 28 | 22 | 78.5714 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.6872 | 95.4167 | 97.9920 | 85.6042 | 687 | 33 | 732 | 15 | 12 | 80.0000 | |
| cchapple-custom | SNP | ti | segdup | * | 99.6040 | 99.8311 | 99.3779 | 91.2552 | 19504 | 33 | 19490 | 122 | 16 | 13.1148 | |
| ciseli-custom | INDEL | * | map_l100_m0_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 33 | 0 | 0 | 0 | |||
| ciseli-custom | INDEL | D16_PLUS | HG002complexvar | homalt | 50.2549 | 88.5813 | 35.0778 | 60.5689 | 256 | 33 | 248 | 459 | 398 | 86.7102 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 52.9379 | 91.7293 | 37.2045 | 59.0488 | 366 | 33 | 362 | 611 | 566 | 92.6350 | |
| ciseli-custom | INDEL | D16_PLUS | map_siren | het | 66.7957 | 57.6923 | 79.3103 | 83.8440 | 45 | 33 | 46 | 12 | 5 | 41.6667 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m0_e0 | homalt | 78.7671 | 77.7027 | 79.8611 | 87.8069 | 115 | 33 | 115 | 29 | 24 | 82.7586 | |
| ciseli-custom | INDEL | D6_15 | map_l150_m1_e0 | * | 55.9441 | 54.7945 | 57.1429 | 94.0171 | 40 | 33 | 40 | 30 | 13 | 43.3333 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.6645 | 92.0290 | 97.4555 | 73.3740 | 381 | 33 | 383 | 10 | 10 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5840 | 97.5019 | 99.6904 | 61.7751 | 1288 | 33 | 1288 | 4 | 2 | 50.0000 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1672 | 98.9840 | 99.3511 | 65.9333 | 3215 | 33 | 3215 | 21 | 8 | 38.0952 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5417 | 99.5043 | 99.5791 | 77.6913 | 6624 | 33 | 6624 | 28 | 9 | 32.1429 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.9551 | 95.5466 | 98.4058 | 74.9000 | 708 | 33 | 679 | 11 | 8 | 72.7273 | |