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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22101-22150 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.2163 | 78.1065 | 93.7500 | 66.1972 | 132 | 37 | 135 | 9 | 9 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.6096 | 90.2375 | 99.4269 | 52.7740 | 342 | 37 | 347 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e0 | het | 97.9878 | 97.0541 | 98.9396 | 75.7755 | 1219 | 37 | 1213 | 13 | 1 | 7.6923 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e1 | het | 97.9674 | 97.0820 | 98.8691 | 75.9144 | 1231 | 37 | 1224 | 14 | 1 | 7.1429 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_siren | het | 98.6092 | 98.3751 | 98.8444 | 74.6336 | 2240 | 37 | 2224 | 26 | 1 | 3.8462 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3613 | 98.9539 | 99.7720 | 65.8757 | 3500 | 37 | 3501 | 8 | 5 | 62.5000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.2438 | 97.5990 | 98.8973 | 68.4428 | 1504 | 37 | 1435 | 16 | 3 | 18.7500 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | het | 97.3464 | 97.2285 | 97.4646 | 85.8260 | 1298 | 37 | 1307 | 34 | 9 | 26.4706 | |
| ndellapenna-hhga | INDEL | * | map_l150_m1_e0 | * | 97.6748 | 97.2347 | 98.1189 | 98.7054 | 1301 | 37 | 1304 | 25 | 9 | 36.0000 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | * | 77.4922 | 85.9848 | 70.5263 | 85.7250 | 227 | 37 | 268 | 112 | 12 | 10.7143 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.3468 | 96.4762 | 98.2332 | 41.6856 | 1013 | 37 | 2780 | 50 | 22 | 44.0000 | |
| ltrigg-rtg2 | SNP | tv | HG002compoundhet | homalt | 99.4361 | 98.9079 | 99.9699 | 40.5831 | 3351 | 37 | 3321 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.2409 | 95.9430 | 86.9781 | 77.5847 | 875 | 37 | 875 | 131 | 121 | 92.3664 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m2_e1 | * | 57.3803 | 61.8557 | 53.5088 | 92.9889 | 60 | 37 | 61 | 53 | 18 | 33.9623 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.0098 | 95.0798 | 80.2025 | 58.7471 | 715 | 37 | 713 | 176 | 170 | 96.5909 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 26.2348 | 75.6579 | 15.8687 | 80.7530 | 115 | 37 | 116 | 615 | 18 | 2.9268 | |
| ckim-dragen | INDEL | * | map_l150_m1_e0 | het | 95.1716 | 95.6725 | 94.6759 | 91.3591 | 818 | 37 | 818 | 46 | 5 | 10.8696 | |
| ckim-dragen | INDEL | * | map_l150_m2_e0 | het | 95.2851 | 95.9161 | 94.6623 | 92.0056 | 869 | 37 | 869 | 49 | 5 | 10.2041 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.2959 | 95.2806 | 99.3983 | 32.5487 | 747 | 37 | 826 | 5 | 5 | 100.0000 | |
| ckim-dragen | SNP | * | segdup | het | 97.6498 | 99.7863 | 95.6029 | 93.5624 | 17280 | 37 | 17285 | 795 | 5 | 0.6289 | |
| ckim-dragen | SNP | ti | map_l125_m0_e0 | homalt | 99.4419 | 99.1761 | 99.7092 | 62.9046 | 4454 | 37 | 4457 | 13 | 12 | 92.3077 | |
| ckim-dragen | SNP | ti | segdup | * | 98.5623 | 99.8106 | 97.3449 | 91.6401 | 19500 | 37 | 19505 | 532 | 9 | 1.6917 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.8473 | 92.4490 | 67.2289 | 80.6707 | 453 | 37 | 279 | 136 | 131 | 96.3235 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2401 | 95.3342 | 99.2238 | 23.4653 | 756 | 37 | 767 | 6 | 6 | 100.0000 | |
| cchapple-custom | INDEL | * | map_l150_m2_e0 | het | 94.0611 | 95.9161 | 92.2764 | 90.5184 | 869 | 37 | 908 | 76 | 12 | 15.7895 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 96.7286 | 0.0000 | 0.0000 | 1094 | 37 | 0 | 0 | 0 | ||
| cchapple-custom | SNP | * | segdup | het | 99.4246 | 99.7863 | 99.0654 | 93.2744 | 17280 | 37 | 17278 | 163 | 5 | 3.0675 | |
| cchapple-custom | SNP | tv | map_l250_m2_e0 | homalt | 97.9858 | 96.0512 | 100.0000 | 85.3349 | 900 | 37 | 900 | 0 | 0 | ||
| cchapple-custom | SNP | tv | map_l250_m2_e1 | homalt | 98.0054 | 96.0888 | 100.0000 | 85.4327 | 909 | 37 | 909 | 0 | 0 | ||
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6208 | 99.3177 | 99.9258 | 72.3505 | 5386 | 37 | 5386 | 4 | 4 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6208 | 99.3177 | 99.9258 | 72.3505 | 5386 | 37 | 5386 | 4 | 4 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 4.4684 | 35.0877 | 2.3861 | 92.1778 | 20 | 37 | 22 | 900 | 12 | 1.3333 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 55.8140 | 72.1805 | 45.4976 | 78.8365 | 96 | 37 | 96 | 115 | 111 | 96.5217 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 62.5501 | 70.8661 | 55.9809 | 69.3548 | 90 | 37 | 117 | 92 | 52 | 56.5217 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m1_e0 | homalt | 57.6307 | 42.1875 | 90.9091 | 76.0870 | 27 | 37 | 30 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e0 | homalt | 58.4551 | 43.0769 | 90.9091 | 76.7606 | 28 | 37 | 30 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 0.0000 | 0.0000 | 44.4444 | 57.1429 | 0 | 37 | 12 | 15 | 5 | 33.3333 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 15.9091 | 0.0000 | 0.0000 | 7 | 37 | 0 | 0 | 0 | ||
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 37.3898 | 74.1259 | 25.0000 | 92.7864 | 106 | 37 | 111 | 333 | 7 | 2.1021 | |
| gduggal-snapvard | SNP | ti | func_cds | homalt | 99.6385 | 99.2986 | 99.9808 | 20.4816 | 5238 | 37 | 5217 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.4108 | 97.4761 | 99.3635 | 46.7420 | 1429 | 37 | 1405 | 9 | 5 | 55.5556 | |
| ghariani-varprowl | INDEL | * | map_l150_m1_e0 | homalt | 94.7603 | 91.9913 | 97.7011 | 86.5533 | 425 | 37 | 425 | 10 | 3 | 30.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 20.9302 | 19.5652 | 22.5000 | 62.6168 | 9 | 37 | 9 | 31 | 31 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 37 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D16_PLUS | segdup | het | 0.0000 | 0.0000 | 0.0000 | 0 | 37 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 61.5923 | 46.3768 | 91.6667 | 79.6610 | 32 | 37 | 33 | 3 | 1 | 33.3333 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 31.2500 | 21.2766 | 58.8235 | 98.2528 | 10 | 37 | 10 | 7 | 4 | 57.1429 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 32.8358 | 22.9167 | 57.8947 | 98.1500 | 11 | 37 | 11 | 8 | 4 | 50.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m0_e0 | het | 82.6482 | 81.6832 | 83.6364 | 95.8716 | 165 | 37 | 184 | 36 | 9 | 25.0000 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 37 | 0 | 0 | 0 | |||