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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23601-23650 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e1 | * | 94.8576 | 91.2913 | 98.7138 | 93.7286 | 304 | 29 | 307 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e1 | het | 92.1619 | 86.2559 | 98.9362 | 91.7616 | 182 | 29 | 186 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | map_siren | homalt | 99.1870 | 98.9077 | 99.4679 | 78.0366 | 2626 | 29 | 2617 | 14 | 10 | 71.4286 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2825 | 96.1942 | 98.3957 | 66.2911 | 733 | 29 | 736 | 12 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2468 | 97.8723 | 98.6242 | 69.6350 | 1334 | 29 | 1362 | 19 | 4 | 21.0526 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8585 | 95.2922 | 98.4772 | 64.0511 | 587 | 29 | 582 | 9 | 9 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8713 | 99.8037 | 99.9390 | 54.3200 | 14741 | 29 | 14742 | 9 | 4 | 44.4444 | |
| jli-custom | INDEL | D1_5 | map_l100_m2_e1 | * | 98.6576 | 98.5044 | 98.8114 | 83.1328 | 1910 | 29 | 1912 | 23 | 8 | 34.7826 | |
| jli-custom | INDEL | D6_15 | HG002compoundhet | het | 93.6150 | 96.6121 | 90.7982 | 65.4935 | 827 | 29 | 819 | 83 | 81 | 97.5904 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.7836 | 92.3684 | 99.4609 | 59.6300 | 351 | 29 | 369 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.4161 | 95.5385 | 99.3691 | 21.9212 | 621 | 29 | 630 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.2805 | 91.4956 | 99.3921 | 56.4238 | 312 | 29 | 327 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 58.2524 | 50.8475 | 68.1818 | 80.3571 | 30 | 29 | 30 | 14 | 14 | 100.0000 | |
| jpowers-varprowl | SNP | * | map_l250_m0_e0 | homalt | 97.1660 | 95.3895 | 99.0099 | 94.2749 | 600 | 29 | 600 | 6 | 2 | 33.3333 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1706 | 98.8297 | 99.5138 | 43.4464 | 2449 | 29 | 2456 | 12 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | ti | map_l100_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 29 | 0 | 0 | 0 | |||
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 0.0000 | 3.3333 | 0.0000 | 0.0000 | 1 | 29 | 0 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.1355 | 98.3410 | 99.9430 | 61.2925 | 1719 | 29 | 1754 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.4517 | 96.9506 | 100.0000 | 80.4511 | 922 | 29 | 884 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | map_l125_m0_e0 | homalt | 99.7091 | 99.5679 | 99.8506 | 69.2643 | 6683 | 29 | 6683 | 10 | 10 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.5609 | 99.3157 | 97.8175 | 79.7318 | 4209 | 29 | 4213 | 94 | 1 | 1.0638 | |
| ltrigg-rtg1 | SNP | tv | map_siren | homalt | 99.8926 | 99.8318 | 99.9535 | 54.5447 | 17211 | 29 | 17205 | 8 | 5 | 62.5000 | |
| jmaeng-gatk | INDEL | * | map_l150_m1_e0 | * | 95.7315 | 97.8326 | 93.7188 | 92.7638 | 1309 | 29 | 1313 | 88 | 9 | 10.2273 | |
| jmaeng-gatk | INDEL | * | map_l150_m2_e0 | * | 95.8724 | 97.9403 | 93.8900 | 93.2577 | 1379 | 29 | 1383 | 90 | 9 | 10.0000 | |
| jmaeng-gatk | INDEL | * | segdup | * | 96.3424 | 98.8654 | 93.9450 | 95.7742 | 2527 | 29 | 2529 | 163 | 11 | 6.7485 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.2658 | 91.9890 | 83.0040 | 81.7064 | 333 | 29 | 210 | 43 | 42 | 97.6744 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.6173 | 95.2922 | 97.9798 | 63.9563 | 587 | 29 | 582 | 12 | 11 | 91.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.1169 | 89.2193 | 99.5833 | 74.7102 | 240 | 29 | 239 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m1_e0 | * | 98.3132 | 97.8342 | 98.7970 | 80.6967 | 1310 | 29 | 1314 | 16 | 2 | 12.5000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m2_e0 | * | 98.3491 | 97.8801 | 98.8227 | 82.1466 | 1339 | 29 | 1343 | 16 | 2 | 12.5000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.3812 | 97.9211 | 98.8456 | 82.2966 | 1366 | 29 | 1370 | 16 | 2 | 12.5000 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.4286 | 71.5686 | 100.0000 | 93.4470 | 73 | 29 | 73 | 0 | 0 | ||
| raldana-dualsentieon | SNP | * | map_l150_m0_e0 | homalt | 99.5464 | 99.2908 | 99.8033 | 71.7833 | 4060 | 29 | 4060 | 8 | 5 | 62.5000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7536 | 86.8778 | 99.4819 | 90.7523 | 192 | 29 | 192 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.4737 | 82.4242 | 97.8417 | 90.5954 | 136 | 29 | 136 | 3 | 1 | 33.3333 | |
| raldana-dualsentieon | SNP | tv | map_siren | homalt | 99.9013 | 99.8318 | 99.9710 | 52.2802 | 17211 | 29 | 17208 | 5 | 5 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e0 | het | 97.6106 | 96.7991 | 98.4358 | 89.4308 | 877 | 29 | 881 | 14 | 5 | 35.7143 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6891 | 96.9760 | 98.4127 | 66.3940 | 930 | 29 | 930 | 15 | 13 | 86.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.1087 | 92.3483 | 98.0392 | 62.9283 | 350 | 29 | 350 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | D1_5 | map_siren | * | 99.0944 | 99.1782 | 99.0107 | 80.6593 | 3500 | 29 | 3503 | 35 | 15 | 42.8571 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 56.7944 | 80.4054 | 43.9024 | 68.0934 | 119 | 29 | 108 | 138 | 138 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 89.7959 | 81.9876 | 99.2481 | 34.4828 | 132 | 29 | 132 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.4611 | 78.1955 | 91.8182 | 83.7278 | 104 | 29 | 101 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_siren | het | 98.4530 | 98.2748 | 98.6318 | 80.8695 | 1652 | 29 | 1658 | 23 | 15 | 65.2174 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.6856 | 95.4758 | 100.0000 | 42.8172 | 612 | 29 | 613 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 91.5452 | 84.4086 | 100.0000 | 70.6542 | 157 | 29 | 157 | 0 | 0 | ||
| rpoplin-dv42 | SNP | ti | map_l250_m1_e0 | homalt | 98.8722 | 98.1954 | 99.5584 | 86.5187 | 1578 | 29 | 1578 | 7 | 7 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e0 | homalt | 98.9359 | 98.3419 | 99.5370 | 87.6280 | 1720 | 29 | 1720 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e1 | homalt | 98.9217 | 98.3634 | 99.4863 | 87.6793 | 1743 | 29 | 1743 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | HG002compoundhet | het | 99.5284 | 99.3794 | 99.6779 | 54.5836 | 4644 | 29 | 4642 | 15 | 10 | 66.6667 | |