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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18301-18350 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0007 | 98.1907 | 97.8114 | 63.8674 | 3799 | 70 | 3754 | 84 | 80 | 95.2381 | |
| ciseli-custom | INDEL | D1_5 | map_l250_m2_e0 | * | 67.3274 | 61.9565 | 73.7179 | 97.3052 | 114 | 70 | 115 | 41 | 14 | 34.1463 | |
| ciseli-custom | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 0.0000 | 4.1096 | 0.0000 | 0.0000 | 3 | 70 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I1_5 | map_l125_m0_e0 | het | 62.2449 | 63.5417 | 61.0000 | 91.6771 | 122 | 70 | 122 | 78 | 63 | 80.7692 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7204 | 98.1014 | 99.3473 | 45.8867 | 3617 | 70 | 3653 | 24 | 22 | 91.6667 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.0578 | 96.0317 | 98.1061 | 87.2243 | 1694 | 70 | 1813 | 35 | 22 | 62.8571 | |
| cchapple-custom | SNP | tv | HG002compoundhet | het | 98.8352 | 98.5020 | 99.1705 | 51.5239 | 4603 | 70 | 5978 | 50 | 33 | 66.0000 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 70.5551 | 95.3826 | 55.9831 | 73.4742 | 1446 | 70 | 1455 | 1144 | 27 | 2.3601 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 88.9790 | 96.7259 | 82.3810 | 40.2277 | 2068 | 70 | 2076 | 444 | 4 | 0.9009 | |
| anovak-vg | SNP | tv | func_cds | het | 97.9570 | 97.3654 | 98.5557 | 42.0612 | 2587 | 70 | 2593 | 38 | 21 | 55.2632 | |
| bgallagher-sentieon | INDEL | * | map_siren | * | 98.9031 | 99.0553 | 98.7513 | 82.8003 | 7340 | 70 | 7355 | 93 | 21 | 22.5806 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 75.4780 | 60.8939 | 99.2481 | 29.2553 | 109 | 70 | 132 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6848 | 91.6268 | 97.9540 | 67.5249 | 766 | 70 | 766 | 16 | 14 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.7489 | 95.0355 | 96.4732 | 75.4199 | 1340 | 70 | 1313 | 48 | 37 | 77.0833 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 88.2318 | 85.4772 | 91.1700 | 92.4108 | 412 | 70 | 413 | 40 | 4 | 10.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 44.0640 | 31.3725 | 74.0000 | 55.3571 | 32 | 70 | 37 | 13 | 12 | 92.3077 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | homalt | 87.8083 | 81.1828 | 95.6113 | 86.4773 | 302 | 70 | 305 | 14 | 13 | 92.8571 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.6650 | 96.0317 | 99.3548 | 89.1657 | 1694 | 70 | 1694 | 11 | 10 | 90.9091 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6831 | 99.3940 | 99.9739 | 63.4875 | 11482 | 70 | 11482 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6831 | 99.3940 | 99.9739 | 63.4875 | 11482 | 70 | 11482 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.2904 | 94.1423 | 98.5390 | 34.0824 | 1125 | 70 | 1214 | 18 | 14 | 77.7778 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.8158 | 98.6325 | 98.9998 | 83.5908 | 5049 | 70 | 5048 | 51 | 37 | 72.5490 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002complexvar | het | 97.7459 | 97.7564 | 97.7354 | 59.1947 | 3050 | 70 | 3021 | 70 | 62 | 88.5714 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.0284 | 92.5690 | 93.4924 | 72.3704 | 872 | 70 | 862 | 60 | 55 | 91.6667 | |
| rpoplin-dv42 | SNP | * | segdup | * | 99.7488 | 99.7506 | 99.7470 | 89.9398 | 27997 | 70 | 27991 | 71 | 31 | 43.6620 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e0 | homalt | 99.3810 | 99.0809 | 99.6830 | 73.3835 | 7546 | 70 | 7546 | 24 | 23 | 95.8333 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e1 | homalt | 99.3872 | 99.0901 | 99.6862 | 73.4415 | 7623 | 70 | 7623 | 24 | 23 | 95.8333 | |
| rpoplin-dv42 | SNP | tv | map_l250_m2_e1 | * | 97.9690 | 97.5995 | 98.3414 | 87.6309 | 2846 | 70 | 2846 | 48 | 32 | 66.6667 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.6498 | 97.8448 | 99.4681 | 65.4748 | 3178 | 70 | 3179 | 17 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | map_l125_m0_e0 | het | 98.8238 | 99.1529 | 98.4969 | 78.6095 | 8193 | 70 | 8191 | 125 | 11 | 8.8000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7723 | 97.8448 | 99.7176 | 64.7729 | 3178 | 70 | 3178 | 9 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.1500 | 99.3519 | 98.9488 | 79.8585 | 10731 | 70 | 10731 | 114 | 27 | 23.6842 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.1724 | 96.1517 | 94.2128 | 83.1481 | 1749 | 70 | 1514 | 93 | 61 | 65.5914 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.1724 | 96.1517 | 94.2128 | 83.1481 | 1749 | 70 | 1514 | 93 | 61 | 65.5914 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002complexvar | het | 98.4267 | 97.0276 | 99.8668 | 58.9949 | 2285 | 70 | 2249 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6562 | 99.3685 | 99.9455 | 58.6114 | 11014 | 70 | 11010 | 6 | 4 | 66.6667 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | * | 55.3459 | 38.5965 | 97.7778 | 90.5462 | 44 | 70 | 44 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | * | 56.4417 | 39.6552 | 97.8723 | 91.1488 | 46 | 70 | 46 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | * | 56.4417 | 39.6552 | 97.8723 | 91.2639 | 46 | 70 | 46 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.7242 | 86.9159 | 99.3644 | 71.0961 | 465 | 70 | 469 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | het | 95.6234 | 94.9676 | 96.2882 | 93.0044 | 1321 | 70 | 1323 | 51 | 5 | 9.8039 | |
| egarrison-hhga | INDEL | * | map_siren | het | 97.9497 | 98.4472 | 97.4573 | 81.1814 | 4438 | 70 | 4446 | 116 | 54 | 46.5517 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.0731 | 66.0194 | 98.5612 | 58.3832 | 136 | 70 | 137 | 2 | 1 | 50.0000 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6743 | 99.8742 | 99.4753 | 60.5238 | 55561 | 70 | 55550 | 293 | 27 | 9.2150 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.8806 | 94.6889 | 95.0731 | 64.4402 | 1248 | 70 | 1235 | 64 | 61 | 95.3125 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 93.5311 | 89.0796 | 98.4509 | 45.0331 | 571 | 70 | 572 | 9 | 8 | 88.8889 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.6411 | 95.0774 | 98.2571 | 84.2376 | 1352 | 70 | 1353 | 24 | 15 | 62.5000 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e0 | * | 98.5111 | 97.5711 | 99.4694 | 87.5099 | 2812 | 70 | 2812 | 15 | 7 | 46.6667 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e1 | * | 98.5286 | 97.5995 | 99.4757 | 87.5868 | 2846 | 70 | 2846 | 15 | 7 | 46.6667 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m0_e0 | * | 73.9830 | 60.2273 | 95.8824 | 96.2121 | 106 | 70 | 163 | 7 | 4 | 57.1429 | |