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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13301-13350 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | tv | map_siren | het | 95.0179 | 92.6002 | 97.5652 | 74.8662 | 26492 | 2117 | 26487 | 661 | 26 | 3.9334 | |
| ckim-dragen | SNP | tv | map_l125_m2_e0 | het | 97.7368 | 98.8508 | 96.6476 | 79.0398 | 10322 | 120 | 10321 | 358 | 26 | 7.2626 | |
| ckim-dragen | SNP | tv | map_l125_m2_e1 | het | 97.7464 | 98.8534 | 96.6639 | 79.1212 | 10432 | 121 | 10431 | 360 | 26 | 7.2222 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.7712 | 99.6205 | 94.0803 | 83.0466 | 525 | 2 | 445 | 28 | 26 | 92.8571 | |
| astatham-gatk | SNP | * | map_l150_m1_e0 | het | 86.2499 | 76.0872 | 99.5460 | 82.9944 | 14697 | 4619 | 14691 | 67 | 26 | 38.8060 | |
| astatham-gatk | SNP | * | map_siren | homalt | 99.7411 | 99.5377 | 99.9454 | 50.1425 | 54901 | 255 | 54892 | 30 | 26 | 86.6667 | |
| astatham-gatk | SNP | ti | map_l150_m1_e0 | * | 91.3534 | 84.2837 | 99.7178 | 78.6410 | 16614 | 3098 | 16610 | 47 | 26 | 55.3191 | |
| astatham-gatk | SNP | tv | * | homalt | 99.9694 | 99.9475 | 99.9912 | 19.9071 | 376925 | 198 | 376910 | 33 | 26 | 78.7879 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3827 | 95.6865 | 97.0892 | 81.8383 | 2063 | 93 | 2068 | 62 | 26 | 41.9355 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.6538 | 99.5092 | 99.7987 | 52.7938 | 13382 | 66 | 13389 | 27 | 26 | 96.2963 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.7443 | 92.7854 | 98.8981 | 31.4540 | 2032 | 158 | 2513 | 28 | 26 | 92.8571 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.2682 | 92.0384 | 98.7330 | 37.3051 | 1630 | 141 | 2104 | 27 | 26 | 96.2963 | |
| anovak-vg | INDEL | I1_5 | func_cds | homalt | 87.3563 | 95.7983 | 80.2817 | 31.0680 | 114 | 5 | 114 | 28 | 26 | 92.8571 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 61.5814 | 69.3069 | 55.4054 | 91.6337 | 70 | 31 | 82 | 66 | 26 | 39.3939 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8625 | 99.9182 | 99.8069 | 52.9404 | 13437 | 11 | 13442 | 26 | 26 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0437 | 98.7072 | 99.3825 | 75.7366 | 6337 | 83 | 6277 | 39 | 26 | 66.6667 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0437 | 98.7072 | 99.3825 | 75.7366 | 6337 | 83 | 6277 | 39 | 26 | 66.6667 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3205 | 99.5404 | 97.1300 | 67.2155 | 1083 | 5 | 1083 | 32 | 26 | 81.2500 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1938 | 95.0545 | 99.4316 | 25.2614 | 4536 | 236 | 4548 | 26 | 26 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0359 | 98.7072 | 99.3669 | 75.4765 | 6337 | 83 | 6278 | 40 | 26 | 65.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0359 | 98.7072 | 99.3669 | 75.4765 | 6337 | 83 | 6278 | 40 | 26 | 65.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 54.9995 | 46.4968 | 67.3077 | 47.2081 | 73 | 84 | 70 | 34 | 26 | 76.4706 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 16.3986 | 10.1523 | 42.6230 | 80.1303 | 20 | 177 | 26 | 35 | 26 | 74.2857 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.1839 | 87.6797 | 90.7407 | 59.6010 | 427 | 60 | 441 | 45 | 26 | 57.7778 | |
| hfeng-pmm1 | SNP | * | map_siren | homalt | 99.8994 | 99.8803 | 99.9184 | 53.4037 | 55090 | 66 | 55084 | 45 | 26 | 57.7778 | |
| hfeng-pmm3 | SNP | * | map_l125_m1_e0 | * | 99.5551 | 99.4838 | 99.6266 | 69.4654 | 45093 | 234 | 45087 | 169 | 26 | 15.3846 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e0 | * | 99.5641 | 99.4949 | 99.6335 | 71.1339 | 46487 | 236 | 46481 | 171 | 26 | 15.2047 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e1 | * | 99.5664 | 99.4979 | 99.6351 | 71.1769 | 46965 | 237 | 46959 | 172 | 26 | 15.1163 | |
| jlack-gatk | INDEL | * | map_l100_m1_e0 | * | 95.3278 | 97.9922 | 92.8044 | 87.6441 | 3514 | 72 | 3521 | 273 | 26 | 9.5238 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.7361 | 92.4350 | 99.2817 | 26.1684 | 4411 | 361 | 4423 | 32 | 26 | 81.2500 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | * | 96.9573 | 94.6624 | 99.3663 | 56.8597 | 5019 | 283 | 5018 | 32 | 26 | 81.2500 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5660 | 94.2153 | 99.0370 | 52.3174 | 3290 | 202 | 3291 | 32 | 26 | 81.2500 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.8131 | 85.8283 | 96.4126 | 64.6593 | 860 | 142 | 860 | 32 | 26 | 81.2500 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9413 | 99.8121 | 98.0856 | 65.0500 | 27626 | 52 | 27616 | 539 | 26 | 4.8238 | |
| hfeng-pmm3 | INDEL | I6_15 | HG002compoundhet | het | 81.1158 | 79.8077 | 82.4675 | 86.8038 | 166 | 42 | 127 | 27 | 25 | 92.5926 | |
| hfeng-pmm3 | SNP | ti | HG002complexvar | * | 99.9019 | 99.8171 | 99.9868 | 17.4486 | 507506 | 930 | 507446 | 67 | 25 | 37.3134 | |
| hfeng-pmm3 | SNP | ti | map_siren | * | 99.7701 | 99.6881 | 99.8523 | 52.8057 | 100042 | 313 | 100027 | 148 | 25 | 16.8919 | |
| hfeng-pmm1 | SNP | ti | map_l125_m1_e0 | * | 99.4515 | 99.2091 | 99.6951 | 68.8149 | 29103 | 232 | 29099 | 89 | 25 | 28.0899 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e0 | * | 99.4583 | 99.2167 | 99.7011 | 70.4657 | 30021 | 237 | 30017 | 90 | 25 | 27.7778 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e1 | * | 99.4622 | 99.2247 | 99.7008 | 70.5014 | 30332 | 237 | 30328 | 91 | 25 | 27.4725 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.6238 | 94.6516 | 98.6800 | 66.1797 | 2513 | 142 | 2467 | 33 | 25 | 75.7576 | |
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | het | 99.0978 | 99.2392 | 98.9567 | 74.3753 | 28176 | 216 | 28170 | 297 | 25 | 8.4175 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e0 | het | 99.1177 | 99.2564 | 98.9794 | 75.5476 | 29100 | 218 | 29094 | 300 | 25 | 8.3333 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e1 | het | 99.1256 | 99.2645 | 98.9871 | 75.5812 | 29422 | 218 | 29416 | 301 | 25 | 8.3057 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.1875 | 95.5720 | 96.8111 | 79.9607 | 1295 | 60 | 1184 | 39 | 25 | 64.1026 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.8847 | 89.4650 | 98.7637 | 56.1710 | 2157 | 254 | 2157 | 27 | 25 | 92.5926 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2106 | 99.7440 | 98.6829 | 40.0729 | 1948 | 5 | 1948 | 26 | 25 | 96.1538 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 89.6142 | 93.7888 | 85.7955 | 36.9176 | 151 | 10 | 151 | 25 | 25 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | homalt | 99.8477 | 99.8885 | 99.8069 | 52.0702 | 13433 | 15 | 13437 | 26 | 25 | 96.1538 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002complexvar | * | 97.1047 | 94.8887 | 99.4267 | 56.6618 | 5031 | 271 | 5029 | 29 | 25 | 86.2069 | |