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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56801-56850 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | * | map_l250_m0_e0 | het | 95.3582 | 96.2264 | 94.5055 | 96.7254 | 51 | 2 | 86 | 5 | 2 | 40.0000 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 80.7692 | 96.2804 | 0 | 0 | 21 | 5 | 4 | 80.0000 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 0.0000 | 0.0000 | 37.5000 | 90.5882 | 0 | 0 | 3 | 5 | 2 | 40.0000 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 84.8485 | 96.8116 | 0 | 0 | 28 | 5 | 2 | 40.0000 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 0.0000 | 94.8980 | 93.3514 | 0 | 0 | 93 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6522 | 96.1165 | 95.1923 | 90.4324 | 99 | 4 | 99 | 5 | 1 | 20.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | * | hetalt | 96.2521 | 92.9933 | 99.7475 | 58.1926 | 1951 | 147 | 1975 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.8025 | 94.1748 | 97.4874 | 88.3830 | 194 | 12 | 194 | 5 | 2 | 40.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.7959 | 100.0000 | 81.4815 | 87.8378 | 22 | 0 | 22 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5149 | 99.5000 | 97.5490 | 61.2167 | 199 | 1 | 199 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3716 | 99.1196 | 99.6249 | 78.0612 | 1351 | 12 | 1328 | 5 | 3 | 60.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5587 | 100.0000 | 99.1213 | 72.9177 | 564 | 0 | 564 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.4231 | 99.8069 | 99.0421 | 80.9489 | 517 | 1 | 517 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.4371 | 99.8117 | 99.0654 | 82.2730 | 530 | 1 | 530 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.4465 | 99.8148 | 99.0809 | 82.3434 | 539 | 1 | 539 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | I1_5 | segdup | het | 99.1652 | 99.2565 | 99.0741 | 95.4899 | 534 | 4 | 535 | 5 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | het | 99.4230 | 99.0658 | 99.7827 | 59.6952 | 2333 | 22 | 2296 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.5364 | 98.1557 | 98.9201 | 82.7174 | 479 | 9 | 458 | 5 | 1 | 20.0000 | |
| dgrover-gatk | SNP | * | map_l250_m0_e0 | homalt | 98.5600 | 97.9332 | 99.1948 | 91.6845 | 616 | 13 | 616 | 5 | 3 | 60.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8720 | 99.8720 | 99.8720 | 30.2429 | 3901 | 5 | 3900 | 5 | 1 | 20.0000 | |
| dgrover-gatk | SNP | ti | map_l150_m0_e0 | homalt | 99.3450 | 98.8772 | 99.8172 | 73.4053 | 2730 | 31 | 2730 | 5 | 4 | 80.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4856 | 99.3676 | 99.6038 | 88.3504 | 1257 | 8 | 1257 | 5 | 5 | 100.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4336 | 99.4962 | 99.3711 | 89.5036 | 790 | 4 | 790 | 5 | 5 | 100.0000 | |
| dgrover-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.4517 | 99.0380 | 99.8689 | 62.1627 | 3809 | 37 | 3809 | 5 | 3 | 60.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m0_e0 | homalt | 99.2760 | 98.7843 | 99.7726 | 69.4073 | 2194 | 27 | 2194 | 5 | 3 | 60.0000 | |
| egarrison-hhga | INDEL | * | map_l125_m0_e0 | homalt | 98.2394 | 98.2394 | 98.2394 | 87.3609 | 279 | 5 | 279 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 85.6175 | 75.6148 | 98.6702 | 63.9501 | 369 | 119 | 371 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.9417 | 80.9524 | 98.6807 | 38.3740 | 374 | 88 | 374 | 5 | 2 | 40.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 82.4914 | 70.8428 | 98.7245 | 40.6959 | 311 | 128 | 387 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 82.7930 | 72.1739 | 97.0760 | 60.0467 | 166 | 64 | 166 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 84.2857 | 75.1592 | 95.9350 | 54.2751 | 118 | 39 | 118 | 5 | 2 | 40.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 78.7229 | 70.4918 | 89.1304 | 63.2000 | 43 | 18 | 41 | 5 | 2 | 40.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 93.3176 | 88.2784 | 98.9669 | 69.3477 | 482 | 64 | 479 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 83.9902 | 73.3509 | 98.2394 | 46.3138 | 278 | 101 | 279 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m0_e0 | * | 77.3562 | 63.7097 | 98.4424 | 89.5098 | 316 | 180 | 316 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m0_e0 | het | 80.1370 | 67.8261 | 97.9079 | 90.6968 | 234 | 111 | 234 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 78.7936 | 69.0909 | 91.6667 | 70.8738 | 38 | 17 | 55 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 56.1404 | 44.4444 | 76.1905 | 92.0152 | 4 | 5 | 16 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 94.7121 | 90.9707 | 98.7745 | 28.0423 | 403 | 40 | 403 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m1_e0 | * | 65.8098 | 50.0000 | 96.2406 | 83.4577 | 129 | 129 | 128 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | * | 65.8291 | 50.0000 | 96.3235 | 84.3858 | 132 | 132 | 131 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e1 | * | 65.3788 | 49.4545 | 96.4286 | 84.2697 | 136 | 139 | 135 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 75.8539 | 63.8889 | 93.3333 | 73.2143 | 69 | 39 | 70 | 5 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 84.6997 | 77.5281 | 93.3333 | 61.1399 | 69 | 20 | 70 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 68.3544 | 57.4468 | 84.3750 | 66.6667 | 27 | 20 | 27 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 67.6923 | 66.6667 | 68.7500 | 71.4286 | 10 | 5 | 11 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 81.7248 | 70.3180 | 97.5490 | 56.0345 | 199 | 84 | 199 | 5 | 5 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 60.8000 | 46.3415 | 88.3721 | 66.6667 | 38 | 44 | 38 | 5 | 5 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.8810 | 91.7722 | 98.2079 | 71.1479 | 290 | 26 | 274 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 73.9245 | 59.9078 | 96.5035 | 42.1053 | 130 | 87 | 138 | 5 | 5 | 100.0000 | |