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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3151-3200 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 84.7824 | 84.1112 | 85.4645 | 89.6399 | 24150 | 4562 | 24242 | 4123 | 282 | 6.8397 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 84.7824 | 84.1112 | 85.4645 | 89.6399 | 24150 | 4562 | 24242 | 4123 | 282 | 6.8397 | |
| dgrover-gatk | INDEL | I6_15 | * | * | 97.9082 | 97.2888 | 98.5355 | 53.2809 | 24150 | 673 | 24155 | 359 | 329 | 91.6435 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e1 | het | 87.2661 | 77.9360 | 99.1339 | 83.6711 | 24129 | 6831 | 24151 | 211 | 63 | 29.8578 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | * | 98.2993 | 97.1961 | 99.4278 | 44.2481 | 24127 | 696 | 23804 | 137 | 83 | 60.5839 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | het | 83.2254 | 78.7865 | 88.1944 | 75.0570 | 24126 | 6496 | 24100 | 3226 | 86 | 2.6658 | |
| astatham-gatk | INDEL | I6_15 | * | * | 97.8089 | 97.1035 | 98.5247 | 52.8353 | 24104 | 719 | 24109 | 361 | 337 | 93.3518 | |
| qzeng-custom | INDEL | D6_15 | * | * | 90.6408 | 92.3501 | 88.9936 | 51.4321 | 24096 | 1996 | 25413 | 3143 | 1242 | 39.5164 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6306 | 98.1744 | 99.0911 | 41.2071 | 24092 | 448 | 24094 | 221 | 211 | 95.4751 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5115 | 98.1663 | 98.8593 | 41.0712 | 24090 | 450 | 24092 | 278 | 270 | 97.1223 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 56.8514 | 55.5879 | 58.1738 | 61.2449 | 24089 | 19246 | 24394 | 17539 | 13551 | 77.2621 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6077 | 98.1214 | 99.0988 | 41.2220 | 24079 | 461 | 24081 | 219 | 210 | 95.8904 | |
| jli-custom | INDEL | I6_15 | * | * | 97.9633 | 96.9786 | 98.9683 | 47.9648 | 24073 | 750 | 24077 | 251 | 222 | 88.4462 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4677 | 98.0807 | 98.8578 | 41.0102 | 24069 | 471 | 24060 | 278 | 268 | 96.4029 | |
| hfeng-pmm2 | INDEL | I6_15 | * | * | 97.8481 | 96.8980 | 98.8171 | 51.0141 | 24053 | 770 | 24058 | 288 | 265 | 92.0139 | |
| ckim-vqsr | SNP | ti | map_siren | homalt | 77.6182 | 63.4297 | 99.9834 | 60.5065 | 24050 | 13866 | 24044 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2676 | 97.9992 | 98.5375 | 41.6126 | 24049 | 491 | 24053 | 357 | 339 | 94.9580 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.7692 | 97.9625 | 99.5893 | 34.5018 | 24040 | 500 | 24005 | 99 | 66 | 66.6667 | |
| ckim-gatk | INDEL | I6_15 | * | * | 97.6383 | 96.8416 | 98.4482 | 52.9059 | 24039 | 784 | 24044 | 379 | 335 | 88.3905 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4981 | 97.9421 | 99.0604 | 41.3577 | 24035 | 505 | 24037 | 228 | 220 | 96.4912 | |
| cchapple-custom | INDEL | I6_15 | * | * | 97.7435 | 96.8215 | 98.6833 | 49.3635 | 24034 | 789 | 25632 | 342 | 305 | 89.1813 | |
| hfeng-pmm1 | INDEL | I6_15 | * | * | 97.8503 | 96.8134 | 98.9096 | 50.1395 | 24032 | 791 | 24037 | 265 | 246 | 92.8302 | |
| hfeng-pmm3 | INDEL | I6_15 | * | * | 97.8954 | 96.7812 | 99.0356 | 49.5509 | 24024 | 799 | 24029 | 234 | 222 | 94.8718 | |
| ckim-vqsr | INDEL | I6_15 | * | * | 97.6524 | 96.7691 | 98.5520 | 52.9508 | 24021 | 802 | 24026 | 353 | 331 | 93.7677 | |
| gduggal-snapfb | SNP | tv | map_l100_m1_e0 | * | 97.5300 | 97.9838 | 97.0805 | 69.8683 | 24007 | 494 | 24008 | 722 | 232 | 32.1330 | |
| ghariani-varprowl | SNP | * | HG002compoundhet | * | 85.5640 | 92.8588 | 79.3318 | 55.0838 | 23978 | 1844 | 24220 | 6310 | 2033 | 32.2187 | |
| cchapple-custom | SNP | tv | map_l100_m1_e0 | * | 97.1628 | 97.8613 | 96.4743 | 69.7586 | 23977 | 524 | 23970 | 876 | 133 | 15.1826 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 66.4735 | 78.6403 | 57.5670 | 62.2369 | 23968 | 6510 | 51344 | 37846 | 29268 | 77.3345 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 66.4735 | 78.6403 | 57.5670 | 62.2369 | 23968 | 6510 | 51344 | 37846 | 29268 | 77.3345 | |
| jmaeng-gatk | INDEL | I6_15 | * | * | 97.3971 | 96.5435 | 98.2659 | 53.3907 | 23965 | 858 | 23970 | 423 | 364 | 86.0520 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | * | 95.8710 | 97.8083 | 94.0091 | 75.1618 | 23964 | 537 | 23883 | 1522 | 97 | 6.3732 | |
| ckim-dragen | INDEL | I6_15 | * | * | 97.2249 | 96.4630 | 97.9990 | 52.8733 | 23945 | 878 | 23949 | 489 | 448 | 91.6155 | |
| bgallagher-sentieon | INDEL | I6_15 | * | * | 97.2604 | 96.4589 | 98.0753 | 52.5522 | 23944 | 879 | 23949 | 470 | 434 | 92.3404 | |
| ckim-isaac | INDEL | * | HG002complexvar | homalt | 93.1685 | 88.5818 | 98.2561 | 47.1228 | 23941 | 3086 | 23890 | 424 | 132 | 31.1321 | |
| gduggal-bwafb | INDEL | D6_15 | * | * | 94.1659 | 91.7408 | 96.7228 | 49.8237 | 23937 | 2155 | 25057 | 849 | 794 | 93.5218 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1412 | 97.5428 | 98.7469 | 41.4519 | 23937 | 603 | 23956 | 304 | 264 | 86.8421 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | * | 77.0714 | 71.7352 | 83.2654 | 65.6966 | 23933 | 9430 | 24301 | 4884 | 375 | 7.6781 | |
| ltrigg-rtg2 | INDEL | * | * | hetalt | 97.1063 | 94.8330 | 99.4912 | 68.4092 | 23933 | 1304 | 24639 | 126 | 124 | 98.4127 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | het | 88.5829 | 81.5915 | 96.8846 | 87.2138 | 23921 | 5397 | 23915 | 769 | 55 | 7.1522 | |
| jpowers-varprowl | SNP | tv | map_l100_m1_e0 | * | 97.6764 | 97.6246 | 97.7283 | 72.0238 | 23919 | 582 | 23919 | 556 | 138 | 24.8201 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | het | 88.4835 | 81.5574 | 96.6953 | 87.4762 | 23911 | 5407 | 23905 | 817 | 51 | 6.2424 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3105 | 97.4328 | 99.2041 | 31.5728 | 23910 | 630 | 24805 | 199 | 188 | 94.4724 | |
| ciseli-custom | SNP | ti | map_l125_m2_e1 | * | 82.1337 | 78.2100 | 86.4719 | 77.2907 | 23908 | 6661 | 23887 | 3737 | 990 | 26.4918 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5102 | 97.4083 | 99.6374 | 38.9351 | 23904 | 636 | 23906 | 87 | 70 | 80.4598 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4896 | 97.3839 | 99.6207 | 39.3186 | 23898 | 642 | 23900 | 91 | 86 | 94.5055 | |
| astatham-gatk | SNP | ti | map_l100_m2_e1 | het | 87.0268 | 77.1576 | 99.7911 | 74.6941 | 23888 | 7072 | 23881 | 50 | 23 | 46.0000 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | hetalt | 97.1901 | 94.8491 | 99.6495 | 57.3566 | 23883 | 1297 | 23882 | 84 | 83 | 98.8095 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4716 | 97.2738 | 99.6993 | 39.0402 | 23871 | 669 | 23873 | 72 | 65 | 90.2778 | |