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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61951-62000 / 86044 show all | |||||||||||||||
| jli-custom | SNP | ti | map_l100_m1_e0 | homalt | 99.7965 | 99.6548 | 99.9386 | 56.4067 | 17898 | 62 | 17898 | 11 | 11 | 100.0000 | |
| jli-custom | SNP | ti | map_l100_m2_e0 | homalt | 99.8004 | 99.6614 | 99.9398 | 59.0453 | 18247 | 62 | 18247 | 11 | 11 | 100.0000 | |
| jli-custom | SNP | ti | map_l100_m2_e1 | homalt | 99.7997 | 99.6593 | 99.9404 | 59.0260 | 18431 | 63 | 18431 | 11 | 11 | 100.0000 | |
| jli-custom | SNP | tv | func_cds | * | 99.8629 | 99.9771 | 99.7489 | 28.1332 | 4370 | 1 | 4370 | 11 | 0 | 0.0000 | |
| jli-custom | SNP | tv | func_cds | het | 99.7746 | 99.9624 | 99.5876 | 29.8712 | 2656 | 1 | 2656 | 11 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9059 | 99.0142 | 98.7978 | 89.1921 | 904 | 9 | 904 | 11 | 6 | 54.5455 | |
| jli-custom | SNP | tv | map_l250_m0_e0 | * | 96.8085 | 95.1634 | 98.5115 | 89.9973 | 728 | 37 | 728 | 11 | 5 | 45.4545 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5356 | 98.2273 | 98.8458 | 72.2319 | 942 | 17 | 942 | 11 | 9 | 81.8182 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m1_e0 | * | 81.6901 | 79.4521 | 84.0580 | 91.6566 | 58 | 15 | 58 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m1_e0 | het | 86.3636 | 97.4359 | 77.5510 | 92.9191 | 38 | 1 | 38 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e0 | * | 83.0189 | 80.4878 | 85.7143 | 91.6847 | 66 | 16 | 66 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e0 | het | 87.1287 | 95.6522 | 80.0000 | 92.8664 | 44 | 2 | 44 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 72.7273 | 71.1111 | 74.4186 | 75.2874 | 32 | 13 | 32 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | segdup | homalt | 95.4644 | 93.4461 | 97.5717 | 90.6347 | 442 | 31 | 442 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 77.2449 | 73.5294 | 81.3559 | 62.8931 | 50 | 18 | 48 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | SNP | * | tech_badpromoters | * | 95.3271 | 97.4522 | 93.2927 | 57.8406 | 153 | 4 | 153 | 11 | 2 | 18.1818 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1048 | 98.5238 | 99.6927 | 45.3838 | 3604 | 54 | 3568 | 11 | 2 | 18.1818 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | homalt | 59.2593 | 100.0000 | 42.1053 | 67.7966 | 8 | 0 | 8 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7495 | 97.6834 | 95.8333 | 56.5789 | 253 | 6 | 253 | 11 | 10 | 90.9091 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7225 | 97.5369 | 97.9087 | 80.2849 | 594 | 15 | 515 | 11 | 8 | 72.7273 | |
| jli-custom | INDEL | D1_5 | map_l150_m1_e0 | het | 98.2480 | 98.7552 | 97.7459 | 87.7633 | 476 | 6 | 477 | 11 | 3 | 27.2727 | |
| jli-custom | INDEL | D1_5 | map_l150_m2_e0 | het | 98.3564 | 98.8327 | 97.8846 | 88.2671 | 508 | 6 | 509 | 11 | 3 | 27.2727 | |
| jli-custom | INDEL | D1_5 | map_l150_m2_e1 | het | 98.2844 | 98.6590 | 97.9127 | 88.3097 | 515 | 7 | 516 | 11 | 3 | 27.2727 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.6489 | 94.8485 | 96.4630 | 73.3505 | 313 | 17 | 300 | 11 | 5 | 45.4545 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | het | 74.1746 | 87.2340 | 64.5161 | 91.9481 | 41 | 6 | 20 | 11 | 6 | 54.5455 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.5344 | 93.5417 | 97.6139 | 77.7831 | 449 | 31 | 450 | 11 | 7 | 63.6364 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | hetalt | 94.9898 | 90.5742 | 99.8580 | 43.9696 | 7745 | 806 | 7738 | 11 | 10 | 90.9091 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7214 | 91.1483 | 98.5861 | 64.1475 | 762 | 74 | 767 | 11 | 6 | 54.5455 | |
| ltrigg-rtg1 | SNP | * | * | hetalt | 99.2007 | 99.6556 | 98.7500 | 40.5405 | 868 | 3 | 869 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m1_e0 | homalt | 99.6993 | 99.5496 | 99.8494 | 70.3647 | 7294 | 33 | 7295 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e0 | homalt | 99.7107 | 99.5667 | 99.8552 | 72.6188 | 7583 | 33 | 7584 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e1 | homalt | 99.7136 | 99.5710 | 99.8566 | 72.6687 | 7660 | 33 | 7662 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m1_e0 | * | 97.6589 | 95.6541 | 99.7497 | 82.8747 | 4380 | 199 | 4383 | 11 | 6 | 54.5455 | |
| ltrigg-rtg1 | SNP | tv | * | hetalt | 99.2007 | 99.6556 | 98.7500 | 40.5405 | 868 | 3 | 869 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6037 | 99.7194 | 99.4884 | 35.8783 | 2132 | 6 | 2139 | 11 | 2 | 18.1818 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m1_e0 | * | 97.5313 | 95.9641 | 99.1506 | 83.9469 | 1284 | 54 | 1284 | 11 | 1 | 9.0909 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m2_e0 | * | 97.5824 | 96.0227 | 99.1935 | 85.3475 | 1352 | 56 | 1353 | 11 | 1 | 9.0909 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m2_e1 | * | 97.5638 | 95.9694 | 99.2120 | 85.3515 | 1381 | 58 | 1385 | 11 | 1 | 9.0909 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 75.5556 | 93.5065 | 0 | 1 | 34 | 11 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6438 | 99.6438 | 99.6438 | 69.4439 | 3077 | 11 | 3077 | 11 | 8 | 72.7273 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 44.9438 | 31.4961 | 78.4314 | 66.6667 | 40 | 87 | 40 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 72.0930 | 70.4545 | 73.8095 | 97.7600 | 31 | 13 | 31 | 11 | 10 | 90.9091 | |
| jpowers-varprowl | INDEL | D1_5 | func_cds | * | 93.0818 | 93.0818 | 93.0818 | 35.6275 | 148 | 11 | 148 | 11 | 10 | 90.9091 | |
| jpowers-varprowl | INDEL | D1_5 | func_cds | het | 93.3333 | 98.8235 | 88.4211 | 41.7178 | 84 | 1 | 84 | 11 | 10 | 90.9091 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.9123 | 83.3333 | 97.6190 | 70.4225 | 455 | 91 | 451 | 11 | 8 | 72.7273 | |
| jpowers-varprowl | INDEL | D1_5 | map_siren | homalt | 96.4427 | 94.0068 | 99.0081 | 73.9977 | 1098 | 70 | 1098 | 11 | 6 | 54.5455 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.2908 | 99.7807 | 98.8056 | 70.5939 | 910 | 2 | 910 | 11 | 8 | 72.7273 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m1_e0 | * | 89.8876 | 91.9540 | 87.9121 | 95.3737 | 80 | 7 | 80 | 11 | 4 | 36.3636 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m2_e0 | * | 90.2174 | 92.2222 | 88.2979 | 95.8952 | 83 | 7 | 83 | 11 | 4 | 36.3636 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.3553 | 91.7526 | 89.0000 | 95.7301 | 89 | 8 | 89 | 11 | 4 | 36.3636 | |