PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63501-63550 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3065 | 99.1690 | 99.4444 | 61.2487 | 358 | 3 | 358 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | * | hetalt | 97.2784 | 94.7194 | 99.9795 | 63.7385 | 9704 | 541 | 9748 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | hetalt | 97.9678 | 96.1538 | 99.8514 | 73.2565 | 1300 | 52 | 1344 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002compoundhet | hetalt | 97.2704 | 94.7044 | 99.9793 | 59.1395 | 9675 | 541 | 9675 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2959 | 98.6897 | 99.9096 | 50.3888 | 6628 | 88 | 6630 | 6 | 3 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002complexvar | hetalt | 97.6862 | 95.6565 | 99.8039 | 48.4848 | 969 | 44 | 1018 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9434 | 94.0945 | 99.9703 | 27.5328 | 6692 | 420 | 6736 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9337 | 94.0758 | 99.9706 | 28.2016 | 6749 | 425 | 6793 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.3163 | 97.0393 | 99.6273 | 57.4974 | 1606 | 49 | 1604 | 6 | 3 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 99.4819 | 100.0000 | 98.9691 | 42.0896 | 192 | 0 | 192 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | segdup | * | 96.0000 | 94.2408 | 97.8261 | 92.8377 | 180 | 11 | 180 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.6970 | 85.0575 | 94.8718 | 84.4000 | 74 | 13 | 74 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8285 | 93.5953 | 98.1707 | 81.2678 | 643 | 44 | 644 | 12 | 6 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6608 | 99.4733 | 99.8491 | 69.3074 | 2644 | 14 | 2646 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m0_e0 | * | 98.2193 | 97.7419 | 98.7013 | 87.8357 | 303 | 7 | 304 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m1_e0 | * | 96.2264 | 96.2264 | 96.2264 | 95.4132 | 102 | 4 | 102 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e0 | * | 96.4602 | 96.4602 | 96.4602 | 95.8623 | 109 | 4 | 109 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m2_e1 | * | 96.4912 | 96.4912 | 96.4912 | 95.9474 | 110 | 4 | 110 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.5435 | 96.5174 | 98.5915 | 71.2841 | 582 | 21 | 560 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5452 | 97.4262 | 99.6902 | 60.4957 | 1287 | 34 | 1287 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | * | HG002compoundhet | het | 96.0618 | 92.4743 | 99.9390 | 43.1383 | 13111 | 1067 | 13110 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | SNP | * | map_l250_m0_e0 | homalt | 98.8924 | 99.3641 | 98.4252 | 92.6624 | 625 | 4 | 625 | 10 | 5 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3024 | 98.7283 | 99.8831 | 33.4500 | 1708 | 22 | 1709 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.9247 | 98.1508 | 99.7110 | 42.4771 | 690 | 13 | 690 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 90.5660 | 96.0000 | 85.7143 | 92.3706 | 24 | 1 | 24 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9762 | 95.3595 | 98.6486 | 84.3187 | 1459 | 71 | 1460 | 20 | 10 | 50.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.3614 | 86.2069 | 94.9367 | 84.3874 | 75 | 12 | 75 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9762 | 95.3595 | 98.6486 | 84.3187 | 1459 | 71 | 1460 | 20 | 10 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2057 | 97.3566 | 99.0698 | 75.6937 | 2394 | 65 | 2343 | 22 | 11 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l250_m1_e0 | * | 96.2264 | 96.2264 | 96.2264 | 95.9465 | 102 | 4 | 102 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l250_m2_e0 | * | 96.4602 | 96.4602 | 96.4602 | 96.3335 | 109 | 4 | 109 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l250_m2_e1 | * | 96.4912 | 96.4912 | 96.4912 | 96.4218 | 110 | 4 | 110 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.3714 | 96.1857 | 98.5866 | 71.6148 | 580 | 23 | 558 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.1220 | 95.1220 | 95.1220 | 93.7785 | 39 | 2 | 39 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9452 | 99.9635 | 99.9270 | 33.2602 | 2737 | 1 | 2737 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m1_e0 | homalt | 99.8648 | 99.8704 | 99.8593 | 60.9853 | 26968 | 35 | 26968 | 38 | 19 | 50.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e0 | homalt | 99.8674 | 99.8728 | 99.8619 | 63.3992 | 27488 | 35 | 27488 | 38 | 19 | 50.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | homalt | 99.8687 | 99.8741 | 99.8633 | 63.3911 | 27761 | 35 | 27761 | 38 | 19 | 50.0000 | |
| hfeng-pmm2 | SNP | * | map_l250_m0_e0 | homalt | 98.8924 | 99.3641 | 98.4252 | 92.6877 | 625 | 4 | 625 | 10 | 5 | 50.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9300 | 100.0000 | 99.8600 | 30.7319 | 1427 | 0 | 1427 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | HG002compoundhet | * | 96.9561 | 94.2396 | 99.8337 | 46.6519 | 8409 | 514 | 8407 | 14 | 7 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6183 | 99.6183 | 99.6183 | 69.2308 | 522 | 2 | 522 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 76.0563 | 64.2857 | 93.1034 | 91.2651 | 27 | 15 | 27 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 85.7143 | 100.0000 | 75.0000 | 92.4528 | 6 | 0 | 6 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m1_e0 | homalt | 99.4179 | 99.7664 | 99.0719 | 87.2692 | 854 | 2 | 854 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m2_e0 | homalt | 99.4146 | 99.6798 | 99.1507 | 88.1241 | 934 | 3 | 934 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m2_e1 | homalt | 99.4201 | 99.6829 | 99.1588 | 88.2127 | 943 | 3 | 943 | 8 | 4 | 50.0000 | |
| hfeng-pmm3 | INDEL | * | HG002compoundhet | hetalt | 96.7848 | 93.7847 | 99.9831 | 50.6733 | 23615 | 1565 | 23731 | 4 | 2 | 50.0000 | |