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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77451-77500 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | * | map_l100_m2_e0 | het | 96.1330 | 95.6220 | 96.6495 | 82.3053 | 2206 | 101 | 3000 | 104 | 69 | 66.3462 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e1 | het | 96.0818 | 95.5186 | 96.6518 | 82.4853 | 2238 | 105 | 3031 | 105 | 69 | 65.7143 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | * | 98.2978 | 98.0385 | 98.5584 | 58.5437 | 5198 | 104 | 5196 | 76 | 69 | 90.7895 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.5189 | 98.9555 | 94.1994 | 86.2906 | 1800 | 19 | 1559 | 96 | 69 | 71.8750 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.5189 | 98.9555 | 94.1994 | 86.2906 | 1800 | 19 | 1559 | 96 | 69 | 71.8750 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | * | 99.4499 | 99.1625 | 99.7391 | 58.6120 | 32441 | 274 | 32494 | 85 | 69 | 81.1765 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0024 | 96.5790 | 99.4683 | 68.2096 | 15527 | 550 | 15528 | 83 | 69 | 83.1325 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0024 | 96.5790 | 99.4683 | 68.2096 | 15527 | 550 | 15528 | 83 | 69 | 83.1325 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | hetalt | 82.1814 | 73.2478 | 93.5968 | 47.9210 | 742 | 271 | 1184 | 81 | 69 | 85.1852 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002compoundhet | homalt | 5.9406 | 100.0000 | 3.0612 | 65.7343 | 3 | 0 | 3 | 95 | 69 | 72.6316 | |
| egarrison-hhga | INDEL | I1_5 | * | hetalt | 97.2375 | 95.2479 | 99.3119 | 61.7967 | 10663 | 532 | 10681 | 74 | 69 | 93.2432 | |
| dgrover-gatk | SNP | * | map_l125_m2_e0 | * | 99.3279 | 99.3194 | 99.3363 | 74.2156 | 46405 | 318 | 46399 | 310 | 69 | 22.2581 | |
| dgrover-gatk | SNP | * | map_l125_m2_e1 | * | 99.3336 | 99.3263 | 99.3409 | 74.2508 | 46884 | 318 | 46878 | 311 | 69 | 22.1865 | |
| ckim-vqsr | INDEL | D16_PLUS | * | het | 97.9651 | 99.2719 | 96.6923 | 79.4267 | 3136 | 23 | 2894 | 99 | 69 | 69.6970 | |
| ckim-vqsr | INDEL | * | * | hetalt | 95.4941 | 91.6313 | 99.6969 | 55.9167 | 23125 | 2112 | 23354 | 71 | 70 | 98.5915 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3452 | 92.0365 | 96.7728 | 58.9950 | 2219 | 192 | 2219 | 74 | 70 | 94.5946 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | * | 98.0282 | 97.5292 | 98.5322 | 58.5722 | 5171 | 131 | 5169 | 77 | 70 | 90.9091 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.2217 | 96.5630 | 88.2540 | 72.0249 | 590 | 21 | 556 | 74 | 70 | 94.5946 | |
| egarrison-hhga | INDEL | I6_15 | HG002compoundhet | het | 73.2414 | 85.0962 | 64.2857 | 79.7719 | 177 | 31 | 171 | 95 | 70 | 73.6842 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 69.0773 | 96.1442 | 0 | 1 | 277 | 124 | 70 | 56.4516 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 69.0773 | 96.1442 | 0 | 1 | 277 | 124 | 70 | 56.4516 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.8637 | 87.9925 | 98.3058 | 30.4621 | 4199 | 573 | 4468 | 77 | 70 | 90.9091 | |
| ndellapenna-hhga | INDEL | I6_15 | * | hetalt | 95.2209 | 91.6969 | 99.0267 | 38.6839 | 7841 | 710 | 7834 | 77 | 70 | 90.9091 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.9729 | 96.4912 | 84.2795 | 74.3705 | 385 | 14 | 386 | 72 | 70 | 97.2222 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | homalt | 80.6830 | 68.0315 | 99.1149 | 73.2795 | 7959 | 3740 | 7839 | 70 | 70 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | HG002complexvar | het | 98.6121 | 98.1362 | 99.0926 | 55.1360 | 17850 | 339 | 18675 | 171 | 70 | 40.9357 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 79.1466 | 70.0599 | 90.9416 | 60.7394 | 702 | 300 | 763 | 76 | 70 | 92.1053 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.1277 | 99.0847 | 86.0835 | 48.4103 | 433 | 4 | 433 | 70 | 70 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 94.0923 | 91.7872 | 96.5162 | 52.1372 | 1967 | 176 | 1967 | 71 | 70 | 98.5915 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | het | 92.2826 | 87.7562 | 97.3014 | 82.8537 | 40718 | 5681 | 40707 | 1129 | 70 | 6.2002 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | het | 92.3544 | 87.8737 | 97.3167 | 82.8441 | 41211 | 5687 | 41200 | 1136 | 70 | 6.1620 | |
| jpowers-varprowl | SNP | tv | map_l125_m0_e0 | * | 95.8974 | 95.8830 | 95.9119 | 81.8721 | 6358 | 273 | 6358 | 271 | 70 | 25.8303 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.5565 | 95.7135 | 99.4720 | 43.1314 | 13174 | 590 | 13375 | 71 | 70 | 98.5915 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.8519 | 95.9843 | 97.7354 | 64.7626 | 3418 | 143 | 3539 | 82 | 70 | 85.3659 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.9187 | 79.7297 | 93.1494 | 34.9226 | 118 | 30 | 979 | 72 | 70 | 97.2222 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 23.8908 | 17.7515 | 36.5217 | 59.5070 | 30 | 139 | 42 | 73 | 70 | 95.8904 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 81.4502 | 90.3104 | 74.1732 | 79.4532 | 960 | 103 | 942 | 328 | 70 | 21.3415 | |
| ckim-dragen | SNP | tv | HG002complexvar | het | 99.9058 | 99.9098 | 99.9019 | 22.2740 | 150595 | 136 | 150740 | 148 | 70 | 47.2973 | |
| ckim-gatk | INDEL | * | * | hetalt | 95.5159 | 91.6749 | 99.6928 | 55.9040 | 23136 | 2101 | 23365 | 72 | 70 | 97.2222 | |
| ckim-gatk | INDEL | D16_PLUS | * | het | 97.6163 | 99.3985 | 95.8968 | 79.2687 | 3140 | 19 | 2898 | 124 | 70 | 56.4516 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.2770 | 99.0654 | 93.6413 | 86.2049 | 1802 | 17 | 1561 | 106 | 70 | 66.0377 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.2770 | 99.0654 | 93.6413 | 86.2049 | 1802 | 17 | 1561 | 106 | 70 | 66.0377 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3901 | 92.1195 | 96.7756 | 58.9739 | 2221 | 190 | 2221 | 74 | 70 | 94.5946 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | * | 98.1151 | 97.6990 | 98.5347 | 58.5306 | 5180 | 122 | 5178 | 77 | 70 | 90.9091 | |
| ckim-gatk | SNP | ti | map_l100_m2_e0 | * | 89.9645 | 82.7516 | 98.5549 | 78.4080 | 40516 | 8445 | 40509 | 594 | 70 | 11.7845 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | * | 90.0482 | 82.8877 | 98.5628 | 78.3843 | 41017 | 8468 | 41010 | 598 | 70 | 11.7057 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6542 | 98.2774 | 99.0338 | 56.4448 | 16146 | 283 | 16093 | 157 | 70 | 44.5860 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.2675 | 94.3265 | 98.2901 | 38.7683 | 6351 | 382 | 6323 | 110 | 70 | 63.6364 | |