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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67201-67250 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 80.0119 | 67.3889 | 98.4536 | 37.0811 | 622 | 301 | 573 | 9 | 9 | 100.0000 | |
| egarrison-hhga | INDEL | * | map_l100_m1_e0 | homalt | 98.5306 | 98.3700 | 98.6917 | 82.5435 | 1207 | 20 | 1207 | 16 | 9 | 56.2500 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e0 | homalt | 98.5703 | 98.4140 | 98.7271 | 83.6796 | 1241 | 20 | 1241 | 16 | 9 | 56.2500 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e1 | homalt | 98.5133 | 98.2826 | 98.7451 | 83.8095 | 1259 | 22 | 1259 | 16 | 9 | 56.2500 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.9627 | 94.4899 | 99.5685 | 38.0503 | 3464 | 202 | 3461 | 15 | 9 | 60.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 92.4298 | 90.2778 | 94.6869 | 59.3991 | 520 | 56 | 499 | 28 | 9 | 32.1429 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.6061 | 79.5775 | 92.6230 | 28.6550 | 113 | 29 | 113 | 9 | 9 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 71.6186 | 79.1667 | 65.3846 | 43.4783 | 19 | 5 | 17 | 9 | 9 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 68.5714 | 57.1429 | 85.7143 | 76.6667 | 76 | 57 | 78 | 13 | 9 | 69.2308 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 70.9431 | 59.3496 | 88.1657 | 78.6885 | 146 | 100 | 149 | 20 | 9 | 45.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 77.6371 | 75.4098 | 80.0000 | 77.2727 | 46 | 15 | 48 | 12 | 9 | 75.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.1245 | 94.5714 | 97.7295 | 52.4859 | 993 | 57 | 990 | 23 | 9 | 39.1304 | |
| ckim-vqsr | INDEL | I16_PLUS | HG002complexvar | * | 98.2632 | 97.2498 | 99.2980 | 66.9502 | 1273 | 36 | 1273 | 9 | 9 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3268 | 94.9581 | 99.8166 | 57.9977 | 5443 | 289 | 5444 | 10 | 9 | 90.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9134 | 100.0000 | 86.7647 | 76.7123 | 59 | 0 | 59 | 9 | 9 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9186 | 98.5743 | 99.2654 | 69.9659 | 2973 | 43 | 2973 | 22 | 9 | 40.9091 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3727 | 99.4055 | 99.3399 | 88.6347 | 1505 | 9 | 1505 | 10 | 9 | 90.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5289 | 99.3598 | 99.6985 | 56.1737 | 27780 | 179 | 27779 | 84 | 9 | 10.7143 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5262 | 99.3991 | 99.6536 | 77.7226 | 6617 | 40 | 6617 | 23 | 9 | 39.1304 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6600 | 99.6762 | 99.6439 | 69.2790 | 3078 | 10 | 3078 | 11 | 9 | 81.8182 | |
| dgrover-gatk | INDEL | * | map_l100_m0_e0 | * | 97.7081 | 98.0806 | 97.3384 | 87.7968 | 1533 | 30 | 1536 | 42 | 9 | 21.4286 | |
| dgrover-gatk | INDEL | D16_PLUS | HG002complexvar | het | 98.2761 | 98.7353 | 97.8211 | 68.7119 | 1093 | 14 | 853 | 19 | 9 | 47.3684 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.4946 | 92.1026 | 99.1461 | 40.7199 | 898 | 77 | 1045 | 9 | 9 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.2366 | 99.7807 | 98.6985 | 70.3346 | 910 | 2 | 910 | 12 | 9 | 75.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9362 | 99.9607 | 99.9116 | 54.3466 | 10174 | 4 | 10174 | 9 | 9 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.1458 | 71.4848 | 99.3528 | 29.1555 | 1815 | 724 | 1842 | 12 | 9 | 75.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.1654 | 74.5662 | 99.2771 | 27.6058 | 1633 | 557 | 1648 | 12 | 9 | 75.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5449 | 91.7497 | 99.6677 | 68.0131 | 3592 | 323 | 3599 | 12 | 9 | 75.0000 | |
| ckim-isaac | SNP | * | map_l100_m0_e0 | * | 74.0949 | 58.9233 | 99.7886 | 67.9602 | 19351 | 13490 | 19354 | 41 | 9 | 21.9512 | |
| ckim-isaac | SNP | * | map_l150_m2_e1 | het | 74.2817 | 59.2251 | 99.6036 | 80.2344 | 12060 | 8303 | 12061 | 48 | 9 | 18.7500 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.8799 | 87.4858 | 96.7387 | 79.1713 | 2314 | 331 | 2373 | 80 | 9 | 11.2500 | |
| ckim-isaac | SNP | tv | map_l125_m1_e0 | * | 70.3696 | 54.3831 | 99.6682 | 71.7978 | 8710 | 7306 | 8712 | 29 | 9 | 31.0345 | |
| ckim-isaac | SNP | tv | map_l125_m2_e0 | * | 70.8343 | 54.9397 | 99.6700 | 73.8494 | 9059 | 7430 | 9061 | 30 | 9 | 30.0000 | |
| ckim-isaac | SNP | tv | map_l125_m2_e1 | * | 70.9236 | 55.0459 | 99.6739 | 73.8556 | 9169 | 7488 | 9171 | 30 | 9 | 30.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.6908 | 99.5935 | 97.8044 | 62.6398 | 490 | 2 | 490 | 11 | 9 | 81.8182 | |
| ckim-vqsr | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6950 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.2725 | 91.6923 | 99.1437 | 39.7362 | 894 | 81 | 1042 | 9 | 9 | 100.0000 | |
| ckim-isaac | SNP | * | map_l125_m1_e0 | het | 76.8418 | 62.5247 | 99.6632 | 73.8033 | 17752 | 10640 | 17754 | 60 | 10 | 16.6667 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | het | 77.2355 | 63.0466 | 99.6657 | 75.2911 | 18484 | 10834 | 18486 | 62 | 10 | 16.1290 | |
| ckim-isaac | SNP | * | map_l125_m2_e1 | het | 77.3202 | 63.1579 | 99.6699 | 75.2966 | 18720 | 10920 | 18722 | 62 | 10 | 16.1290 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.6206 | 94.3419 | 99.0120 | 44.7425 | 2301 | 138 | 2305 | 23 | 10 | 43.4783 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.5449 | 90.4908 | 96.8125 | 75.4534 | 3835 | 403 | 3918 | 129 | 10 | 7.7519 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | * | 80.0185 | 66.7647 | 99.8378 | 62.0110 | 32001 | 15930 | 32005 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | * | 80.3204 | 67.1841 | 99.8422 | 64.2807 | 32894 | 16067 | 32898 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | * | 80.3859 | 67.2749 | 99.8441 | 64.2491 | 33291 | 16194 | 33295 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 76.2347 | 73.3333 | 79.3750 | 87.3317 | 121 | 44 | 127 | 33 | 10 | 30.3030 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4518 | 99.2381 | 99.6663 | 75.2850 | 5080 | 39 | 5078 | 17 | 10 | 58.8235 | |
| ckim-vqsr | INDEL | * | segdup | * | 98.6516 | 98.7089 | 98.5943 | 95.8809 | 2523 | 33 | 2525 | 36 | 10 | 27.7778 | |
| ckim-vqsr | INDEL | D16_PLUS | HG002complexvar | het | 98.3872 | 98.7353 | 98.0415 | 69.0000 | 1093 | 14 | 851 | 17 | 10 | 58.8235 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.0630 | 100.0000 | 92.4242 | 87.5000 | 122 | 0 | 122 | 10 | 10 | 100.0000 | |