PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85001-85050 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.3359 | 95.5357 | 99.2053 | 39.4061 | 749 | 35 | 749 | 6 | 6 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.5391 | 79.3197 | 97.6589 | 50.7414 | 583 | 152 | 584 | 14 | 14 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.8712 | 78.6982 | 94.4828 | 72.7955 | 133 | 36 | 137 | 8 | 8 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.2734 | 78.1321 | 98.8372 | 30.2231 | 343 | 96 | 340 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.6780 | 84.2520 | 98.1651 | 42.0213 | 107 | 20 | 107 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 84.0042 | 73.5294 | 97.9592 | 95.6328 | 50 | 18 | 48 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 75.6757 | 66.6667 | 87.5000 | 94.5946 | 6 | 3 | 7 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.8866 | 95.1220 | 98.7179 | 46.1140 | 312 | 16 | 308 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4586 | 97.3913 | 99.5495 | 58.8889 | 224 | 6 | 221 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 93.7178 | 89.7143 | 98.0952 | 43.4470 | 314 | 36 | 309 | 6 | 6 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.9286 | 92.1569 | 97.8723 | 55.6604 | 94 | 8 | 92 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.3820 | 91.3043 | 97.6744 | 49.4118 | 42 | 4 | 42 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 87.5000 | 87.5000 | 87.5000 | 78.3784 | 7 | 1 | 7 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | map_siren | homalt | 90.6250 | 85.2941 | 96.6667 | 84.5361 | 29 | 5 | 29 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | hetalt | 96.9361 | 94.4597 | 99.5459 | 61.8378 | 9650 | 566 | 9645 | 44 | 44 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | homalt | 94.9357 | 94.5017 | 95.3737 | 63.6951 | 275 | 16 | 268 | 13 | 13 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.6456 | 96.2766 | 99.0541 | 57.2748 | 724 | 28 | 733 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l150_m0_e0 | homalt | 98.1707 | 98.1707 | 98.1707 | 91.1923 | 161 | 3 | 161 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l250_m0_e0 | homalt | 96.0000 | 96.0000 | 96.0000 | 97.5248 | 24 | 1 | 24 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l250_m1_e0 | homalt | 97.2222 | 96.3303 | 98.1308 | 95.0256 | 105 | 4 | 105 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e0 | homalt | 97.3684 | 96.5217 | 98.2301 | 95.4673 | 111 | 4 | 111 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.3913 | 96.5517 | 98.2456 | 95.5277 | 112 | 4 | 112 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | hetalt | 96.0050 | 92.9126 | 99.3103 | 38.0720 | 1796 | 137 | 2016 | 14 | 14 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 92.1538 | 87.8543 | 96.8958 | 47.4971 | 217 | 30 | 437 | 14 | 14 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002compoundhet | hetalt | 96.2053 | 93.0498 | 99.5822 | 25.8327 | 1794 | 134 | 1907 | 8 | 8 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002compoundhet | homalt | 47.0588 | 100.0000 | 30.7692 | 74.2574 | 8 | 0 | 8 | 18 | 18 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.0868 | 89.5385 | 99.1220 | 39.9179 | 873 | 102 | 1016 | 9 | 9 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2580 | 95.1314 | 99.4819 | 36.3636 | 1231 | 63 | 1344 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.0284 | 92.9570 | 99.3097 | 38.0196 | 1795 | 136 | 2014 | 14 | 14 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.6701 | 88.9527 | 98.9160 | 37.4576 | 620 | 77 | 730 | 8 | 8 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.8238 | 92.6407 | 99.2335 | 33.1757 | 1498 | 119 | 1683 | 13 | 13 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6407 | 97.4133 | 97.8690 | 64.6778 | 1883 | 50 | 1883 | 41 | 41 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.8781 | 99.0512 | 92.9019 | 82.4220 | 522 | 5 | 445 | 34 | 34 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3707 | 95.3390 | 99.4908 | 31.5202 | 900 | 44 | 977 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.6757 | 99.7835 | 99.5680 | 64.0528 | 461 | 1 | 461 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.7772 | 92.5409 | 99.2481 | 35.3886 | 1526 | 123 | 1716 | 13 | 13 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.0284 | 92.9570 | 99.3097 | 38.0196 | 1795 | 136 | 2014 | 14 | 14 | 100.0000 | |
| 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 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.6464 | 84.7380 | 99.7812 | 34.5272 | 372 | 67 | 456 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.5490 | 96.0366 | 99.1098 | 37.5926 | 315 | 13 | 334 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.2835 | 94.0000 | 98.6807 | 34.4291 | 329 | 21 | 374 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.0583 | 99.0196 | 97.1154 | 64.1379 | 101 | 1 | 101 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7179 | 98.0892 | 99.3548 | 70.4198 | 154 | 3 | 154 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3329 | 98.3607 | 98.3051 | 81.7901 | 60 | 1 | 58 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 92.1348 | 89.1304 | 95.3488 | 68.1481 | 41 | 5 | 41 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 78.9474 | 75.0000 | 83.3333 | 90.9091 | 6 | 2 | 5 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.2963 | 100.0000 | 92.8571 | 48.1481 | 13 | 0 | 13 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | * | hetalt | 96.3487 | 93.3431 | 99.5544 | 62.8913 | 9563 | 682 | 9606 | 43 | 43 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 92.2064 | 88.1657 | 96.6354 | 72.5869 | 1192 | 160 | 1235 | 43 | 43 | 100.0000 | |