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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63401-63450 / 86044 show all | |||||||||||||||
| jli-custom | SNP | tv | map_l250_m0_e0 | het | 96.2433 | 94.0559 | 98.5348 | 89.4472 | 538 | 34 | 538 | 8 | 2 | 25.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.5532 | 95.6633 | 99.5192 | 32.7405 | 750 | 34 | 828 | 4 | 4 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m2_e1 | * | 77.3663 | 73.4375 | 81.7391 | 90.2294 | 94 | 34 | 94 | 21 | 20 | 95.2381 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.5485 | 98.6635 | 98.4338 | 60.5864 | 2510 | 34 | 2514 | 40 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4182 | 99.4576 | 99.3789 | 47.3459 | 6234 | 34 | 6240 | 39 | 16 | 41.0256 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.5345 | 96.5726 | 96.4965 | 79.8059 | 958 | 34 | 964 | 35 | 1 | 2.8571 | |
| jpowers-varprowl | SNP | tv | map_l250_m0_e0 | het | 89.0728 | 94.0559 | 84.5912 | 95.1175 | 538 | 34 | 538 | 98 | 12 | 12.2449 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.3600 | 95.2580 | 99.5569 | 48.5171 | 683 | 34 | 674 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.5360 | 94.4171 | 98.7522 | 73.2347 | 575 | 34 | 554 | 7 | 4 | 57.1429 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.5285 | 98.0726 | 98.9887 | 85.3252 | 1730 | 34 | 1664 | 17 | 1 | 5.8824 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6497 | 97.9456 | 99.3640 | 46.2896 | 1621 | 34 | 2812 | 18 | 16 | 88.8889 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 94.8407 | 0.0000 | 0.0000 | 625 | 34 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2565 | 95.0509 | 97.4930 | 80.7300 | 653 | 34 | 700 | 18 | 13 | 72.2222 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 94.8407 | 0.0000 | 0.0000 | 625 | 34 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7388 | 98.0035 | 99.4851 | 62.3094 | 1669 | 34 | 2705 | 14 | 11 | 78.5714 | |
| ciseli-custom | INDEL | * | tech_badpromoters | * | 58.7413 | 55.2632 | 62.6866 | 50.3704 | 42 | 34 | 42 | 25 | 17 | 68.0000 | |
| ciseli-custom | SNP | ti | segdup | homalt | 98.5690 | 99.5470 | 97.6100 | 88.0096 | 7471 | 34 | 7433 | 182 | 99 | 54.3956 | |
| ckim-dragen | INDEL | * | map_l125_m0_e0 | * | 95.5436 | 96.1451 | 94.9495 | 90.2750 | 848 | 34 | 846 | 45 | 8 | 17.7778 | |
| ckim-dragen | SNP | tv | map_l125_m1_e0 | homalt | 99.5812 | 99.4198 | 99.7432 | 62.3307 | 5826 | 34 | 5826 | 15 | 13 | 86.6667 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | het | 99.2569 | 98.9103 | 99.6060 | 59.0976 | 3086 | 34 | 3034 | 12 | 10 | 83.3333 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6636 | 97.0202 | 98.3156 | 79.8607 | 1107 | 34 | 1109 | 19 | 14 | 73.6842 | |
| ckim-dragen | SNP | ti | HG002compoundhet | * | 99.7941 | 99.8055 | 99.7828 | 35.8899 | 17444 | 34 | 17457 | 38 | 18 | 47.3684 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 36.4238 | 22.7273 | 91.6667 | 97.8799 | 10 | 34 | 11 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 8.1081 | 0.0000 | 0.0000 | 3 | 34 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 62.9804 | 73.2283 | 55.2486 | 68.8468 | 93 | 34 | 100 | 81 | 11 | 13.5802 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 8.1081 | 0.0000 | 0.0000 | 3 | 34 | 0 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4251 | 99.4428 | 99.4073 | 78.7466 | 6068 | 34 | 6038 | 36 | 13 | 36.1111 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 84.2593 | 72.8000 | 100.0000 | 24.6032 | 91 | 34 | 95 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 45.9459 | 33.3333 | 73.9130 | 97.2684 | 17 | 34 | 17 | 6 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.2857 | 26.0870 | 50.0000 | 38.4615 | 12 | 34 | 12 | 12 | 11 | 91.6667 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 40.9449 | 27.6596 | 78.7879 | 64.1304 | 13 | 34 | 26 | 7 | 7 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | map_siren | het | 43.6447 | 30.6122 | 76.0000 | 62.1212 | 15 | 34 | 19 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m2_e0 | het | 97.5348 | 97.2930 | 97.7778 | 83.2980 | 1222 | 34 | 1232 | 28 | 2 | 7.1429 | |
| gduggal-bwafb | INDEL | I16_PLUS | map_siren | het | 46.8750 | 30.6122 | 100.0000 | 69.8630 | 15 | 34 | 22 | 0 | 0 | ||
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.1834 | 98.7146 | 88.2392 | 86.6487 | 2611 | 34 | 2626 | 350 | 41 | 11.7143 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2925 | 99.2749 | 97.3294 | 48.4124 | 4655 | 34 | 4665 | 128 | 17 | 13.2812 | |
| gduggal-bwaplat | INDEL | * | func_cds | het | 91.1392 | 84.1121 | 99.4475 | 61.8143 | 180 | 34 | 180 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | map_siren | * | 61.0410 | 60.4651 | 61.6279 | 85.1724 | 52 | 34 | 53 | 33 | 20 | 60.6061 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m1_e0 | * | 71.7489 | 70.1754 | 73.3945 | 86.6585 | 80 | 34 | 80 | 29 | 19 | 65.5172 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m2_e0 | * | 72.2467 | 70.6897 | 73.8739 | 87.7212 | 82 | 34 | 82 | 29 | 19 | 65.5172 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m2_e1 | * | 72.2467 | 70.6897 | 73.8739 | 87.9870 | 82 | 34 | 82 | 29 | 19 | 65.5172 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 72.0662 | 84.6154 | 62.7586 | 92.3219 | 187 | 34 | 182 | 108 | 16 | 14.8148 | |
| gduggal-bwavard | SNP | tv | map_l250_m1_e0 | het | 84.6644 | 98.0974 | 74.4672 | 92.2745 | 1753 | 34 | 1747 | 599 | 12 | 2.0033 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | homalt | 99.9769 | 99.9643 | 99.9895 | 22.8756 | 95077 | 34 | 95069 | 10 | 9 | 90.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 77.3333 | 63.0435 | 100.0000 | 58.2734 | 58 | 34 | 58 | 0 | 0 | ||
| 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 | * | map_l100_m0_e0 | homalt | 99.7374 | 99.7074 | 99.7675 | 63.8562 | 11586 | 34 | 11586 | 27 | 10 | 37.0370 | |
| hfeng-pmm1 | SNP | * | map_l250_m0_e0 | het | 97.8398 | 97.7424 | 97.9375 | 93.0288 | 1472 | 34 | 1472 | 31 | 4 | 12.9032 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8348 | 99.6884 | 99.9816 | 59.7111 | 10877 | 34 | 10874 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | het | 98.0433 | 98.4787 | 97.6117 | 85.3524 | 2201 | 34 | 2207 | 54 | 7 | 12.9630 | |