PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75101-75150 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 24.7522 | 14.3959 | 88.2086 | 64.5213 | 392 | 2331 | 389 | 52 | 41 | 78.8462 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1424 | 95.1756 | 99.1922 | 62.0377 | 6017 | 305 | 6017 | 49 | 41 | 83.6735 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1424 | 95.1756 | 99.1922 | 62.0377 | 6017 | 305 | 6017 | 49 | 41 | 83.6735 | |
| hfeng-pmm1 | SNP | * | map_l125_m1_e0 | * | 99.4583 | 99.2389 | 99.6786 | 68.9911 | 44982 | 345 | 44976 | 145 | 41 | 28.2759 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e0 | * | 99.4680 | 99.2509 | 99.6861 | 70.6559 | 46373 | 350 | 46367 | 146 | 41 | 28.0822 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e1 | * | 99.4713 | 99.2564 | 99.6872 | 70.6981 | 46851 | 351 | 46845 | 147 | 41 | 27.8912 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9876 | 99.1538 | 98.8219 | 62.9494 | 11014 | 94 | 10989 | 131 | 41 | 31.2977 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.3889 | 94.4487 | 96.3481 | 51.8879 | 1242 | 73 | 1240 | 47 | 41 | 87.2340 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.8784 | 82.4324 | 70.2899 | 72.7811 | 122 | 26 | 97 | 41 | 41 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.9269 | 85.8170 | 96.6839 | 77.1395 | 1313 | 217 | 1312 | 45 | 41 | 91.1111 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.9269 | 85.8170 | 96.6839 | 77.1395 | 1313 | 217 | 1312 | 45 | 41 | 91.1111 | |
| raldana-dualsentieon | INDEL | D1_5 | HG002complexvar | * | 99.1616 | 98.5022 | 99.8299 | 57.5831 | 32225 | 490 | 32276 | 55 | 41 | 74.5455 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002complexvar | * | 99.3540 | 98.8640 | 99.8488 | 56.1047 | 32984 | 379 | 33026 | 50 | 41 | 82.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.2658 | 91.9890 | 83.0040 | 81.7064 | 333 | 29 | 210 | 43 | 42 | 97.6744 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002compoundhet | hetalt | 96.8685 | 94.3226 | 99.5556 | 55.8683 | 9636 | 580 | 9632 | 43 | 42 | 97.6744 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9102 | 91.6918 | 92.1296 | 76.9886 | 607 | 55 | 597 | 51 | 42 | 82.3529 | |
| rpoplin-dv42 | SNP | ti | HG002compoundhet | * | 99.6565 | 99.5938 | 99.7193 | 35.2092 | 17407 | 71 | 17405 | 49 | 42 | 85.7143 | |
| rpoplin-dv42 | SNP | ti | map_siren | homalt | 99.8060 | 99.7283 | 99.8838 | 52.4445 | 37813 | 103 | 37814 | 44 | 42 | 95.4545 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.3102 | 87.5375 | 89.0966 | 84.7216 | 583 | 83 | 572 | 70 | 42 | 60.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.3102 | 87.5375 | 89.0966 | 84.7216 | 583 | 83 | 572 | 70 | 42 | 60.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m1_e0 | homalt | 70.2797 | 61.4679 | 82.0408 | 75.7185 | 201 | 126 | 201 | 44 | 42 | 95.4545 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e0 | homalt | 71.0218 | 62.1701 | 82.8125 | 78.5774 | 212 | 129 | 212 | 44 | 42 | 95.4545 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e1 | homalt | 71.2146 | 62.3907 | 82.9457 | 78.9731 | 214 | 129 | 214 | 44 | 42 | 95.4545 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 73.5160 | 59.0220 | 97.4456 | 46.9644 | 2257 | 1567 | 2060 | 54 | 42 | 77.7778 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1160 | 95.4815 | 98.8074 | 51.9618 | 5473 | 259 | 5468 | 66 | 42 | 63.6364 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002compoundhet | hetalt | 95.3870 | 91.6833 | 99.4026 | 27.8852 | 7827 | 710 | 7820 | 47 | 42 | 89.3617 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.0670 | 99.1636 | 96.9944 | 39.3861 | 2134 | 18 | 2969 | 92 | 42 | 45.6522 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.0350 | 97.4018 | 92.7804 | 51.2443 | 1612 | 43 | 2763 | 215 | 42 | 19.5349 | |
| qzeng-custom | SNP | * | map_l125_m0_e0 | homalt | 77.7882 | 64.0644 | 98.9949 | 72.2676 | 4300 | 2412 | 4235 | 43 | 42 | 97.6744 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.0837 | 98.5942 | 97.5785 | 75.0150 | 4769 | 68 | 4876 | 121 | 42 | 34.7107 | |
| qzeng-custom | SNP | tv | map_l125_m1_e0 | homalt | 83.8172 | 72.6621 | 99.0185 | 65.9234 | 4258 | 1602 | 4237 | 42 | 42 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l250_m0_e0 | het | 74.5292 | 65.5594 | 86.3426 | 98.2078 | 375 | 197 | 373 | 59 | 42 | 71.1864 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002complexvar | hetalt | 94.0012 | 92.3001 | 95.7661 | 55.0113 | 935 | 78 | 950 | 42 | 42 | 100.0000 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.8278 | 100.0000 | 97.6827 | 39.6904 | 2738 | 0 | 2740 | 65 | 42 | 64.6154 | |
| jli-custom | SNP | ti | * | homalt | 99.9866 | 99.9797 | 99.9934 | 15.9268 | 802875 | 163 | 802870 | 53 | 42 | 79.2453 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6596 | 99.0406 | 96.3166 | 82.8425 | 1342 | 13 | 1229 | 47 | 42 | 89.3617 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 74.4444 | 94.3662 | 61.4679 | 54.5833 | 67 | 4 | 67 | 42 | 42 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5651 | 93.9933 | 99.2815 | 52.4049 | 6494 | 415 | 6494 | 47 | 42 | 89.3617 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e1 | * | 80.8313 | 69.0469 | 97.4662 | 88.8350 | 22240 | 9970 | 22234 | 578 | 42 | 7.2664 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.6226 | 93.3223 | 98.0392 | 55.3589 | 2250 | 161 | 2250 | 45 | 42 | 93.3333 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.1976 | 99.0717 | 99.3238 | 51.2490 | 6617 | 62 | 6610 | 45 | 42 | 93.3333 | |
| jli-custom | INDEL | D6_15 | * | hetalt | 97.5456 | 95.7181 | 99.4442 | 33.1475 | 7824 | 350 | 7872 | 44 | 42 | 95.4545 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.7253 | 98.6270 | 91.1205 | 47.0917 | 431 | 6 | 431 | 42 | 42 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | * | 95.4155 | 93.2338 | 97.7017 | 49.8529 | 1998 | 145 | 1998 | 47 | 42 | 89.3617 | |
| ltrigg-rtg1 | SNP | tv | * | homalt | 99.9663 | 99.9491 | 99.9836 | 19.8090 | 376929 | 192 | 376963 | 62 | 42 | 67.7419 | |
| anovak-vg | INDEL | I6_15 | segdup | homalt | 59.8909 | 80.8511 | 47.5610 | 87.6506 | 38 | 9 | 39 | 43 | 42 | 97.6744 | |
| anovak-vg | SNP | tv | segdup | het | 97.1722 | 97.0305 | 97.3143 | 94.5962 | 5130 | 157 | 5109 | 141 | 42 | 29.7872 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 75.8242 | 97.1831 | 62.1622 | 52.7660 | 69 | 2 | 69 | 42 | 42 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.7079 | 97.3724 | 98.0457 | 60.9578 | 1297 | 35 | 2358 | 47 | 42 | 89.3617 | |
| asubramanian-gatk | SNP | tv | * | het | 98.8211 | 97.8557 | 99.8057 | 26.7081 | 579008 | 12688 | 578944 | 1127 | 42 | 3.7267 | |