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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72401-72450 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.6605 | 87.9344 | 89.3987 | 86.9048 | 57466 | 7885 | 57984 | 6876 | 6009 | 87.3909 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.4567 | 75.6715 | 88.1998 | 59.8076 | 12143 | 3904 | 12273 | 1642 | 1435 | 87.3934 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3791 | 96.4809 | 98.2942 | 54.2906 | 21467 | 783 | 21493 | 373 | 326 | 87.3995 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3820 | 97.9096 | 98.8590 | 53.4408 | 5480 | 117 | 13083 | 151 | 132 | 87.4172 | |
| gduggal-bwavard | INDEL | I1_5 | HG002complexvar | het | 93.6787 | 97.5535 | 90.0999 | 57.7758 | 17744 | 445 | 17310 | 1902 | 1663 | 87.4343 | |
| ghariani-varprowl | INDEL | * | HG002compoundhet | homalt | 33.4304 | 91.1079 | 20.4709 | 62.9558 | 625 | 61 | 626 | 2432 | 2127 | 87.4589 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.0890 | 20.6844 | 39.2387 | 39.7707 | 272 | 1043 | 268 | 415 | 363 | 87.4699 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 56.2787 | 41.6430 | 86.7771 | 58.5183 | 3371 | 4724 | 3406 | 519 | 454 | 87.4759 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 43.5045 | 31.1688 | 72.0000 | 59.1837 | 144 | 318 | 144 | 56 | 49 | 87.5000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 42.0587 | 30.6709 | 66.8966 | 62.3377 | 96 | 217 | 97 | 48 | 42 | 87.5000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 75.3108 | 61.8076 | 96.3636 | 56.5217 | 212 | 131 | 212 | 8 | 7 | 87.5000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.6603 | 88.6076 | 97.1014 | 74.9319 | 280 | 36 | 268 | 8 | 7 | 87.5000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m0_e0 | * | 74.8768 | 73.7864 | 76.0000 | 91.3420 | 76 | 27 | 76 | 24 | 21 | 87.5000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m0_e0 | het | 82.5175 | 98.3333 | 71.0843 | 91.9024 | 59 | 1 | 59 | 24 | 21 | 87.5000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.0780 | 79.3651 | 84.9829 | 70.4935 | 500 | 130 | 498 | 88 | 77 | 87.5000 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 23.5294 | 13.9276 | 75.7576 | 73.7052 | 50 | 309 | 50 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 4.7019 | 2.5478 | 30.4348 | 66.6667 | 4 | 153 | 7 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 5.9197 | 3.2787 | 30.4348 | 64.6154 | 2 | 59 | 7 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D6_15 | func_cds | * | 67.7933 | 60.4651 | 77.1429 | 50.7042 | 26 | 17 | 27 | 8 | 7 | 87.5000 | |
| gduggal-snapvard | INDEL | D6_15 | func_cds | het | 79.1035 | 82.7586 | 75.7576 | 50.7463 | 24 | 5 | 25 | 8 | 7 | 87.5000 | |
| gduggal-snapvard | INDEL | I16_PLUS | segdup | * | 7.7994 | 4.2553 | 46.6667 | 93.6170 | 2 | 45 | 7 | 8 | 7 | 87.5000 | |
| gduggal-snapvard | INDEL | I16_PLUS | segdup | het | 14.1414 | 8.3333 | 46.6667 | 93.3628 | 2 | 22 | 7 | 8 | 7 | 87.5000 | |
| gduggal-bwavard | INDEL | D16_PLUS | * | homalt | 80.8672 | 68.2033 | 99.3062 | 53.9537 | 1154 | 538 | 1145 | 8 | 7 | 87.5000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.1852 | 76.5690 | 98.5637 | 61.2117 | 549 | 168 | 549 | 8 | 7 | 87.5000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 85.0109 | 74.4135 | 99.1279 | 56.8517 | 2728 | 938 | 2728 | 24 | 21 | 87.5000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 59.3452 | 47.5410 | 78.9474 | 87.6623 | 29 | 32 | 30 | 8 | 7 | 87.5000 | |
| gduggal-bwafb | INDEL | D16_PLUS | map_siren | * | 77.2358 | 66.4336 | 92.2330 | 84.8529 | 95 | 48 | 95 | 8 | 7 | 87.5000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 87.6436 | 79.6791 | 97.3770 | 64.0330 | 298 | 76 | 297 | 8 | 7 | 87.5000 | |
| gduggal-bwafb | SNP | tv | HG002complexvar | homalt | 99.8685 | 99.7960 | 99.9410 | 22.9952 | 94917 | 194 | 94931 | 56 | 49 | 87.5000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 69.9400 | 54.1784 | 98.6348 | 79.3006 | 577 | 488 | 578 | 8 | 7 | 87.5000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.0576 | 82.2478 | 99.5062 | 84.1820 | 3220 | 695 | 3224 | 16 | 14 | 87.5000 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.0582 | 79.0032 | 99.4576 | 57.3453 | 1490 | 396 | 1467 | 8 | 7 | 87.5000 | |
| gduggal-bwavard | SNP | ti | map_siren | homalt | 98.3235 | 96.7850 | 99.9118 | 51.1238 | 36697 | 1219 | 36241 | 32 | 28 | 87.5000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 88.8215 | 82.4299 | 96.2877 | 75.1298 | 441 | 94 | 415 | 16 | 14 | 87.5000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 73.1236 | 61.8658 | 89.3899 | 45.9110 | 378 | 233 | 337 | 40 | 35 | 87.5000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 60.2778 | 43.6644 | 97.2973 | 41.1531 | 255 | 329 | 288 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m1_e0 | homalt | 98.7696 | 99.0826 | 98.4586 | 84.5167 | 324 | 3 | 511 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 19.2616 | 10.7547 | 92.1569 | 64.7059 | 57 | 473 | 94 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 0.0000 | 0.0000 | 27.2727 | 50.0000 | 0 | 13 | 3 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 0.0000 | 0.0000 | 11.1111 | 18.1818 | 0 | 0 | 1 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.7077 | 92.3701 | 95.0845 | 58.6667 | 569 | 47 | 619 | 32 | 28 | 87.5000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.1463 | 87.3563 | 91.0112 | 82.7519 | 76 | 11 | 81 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 85.1852 | 100.0000 | 74.1935 | 85.9091 | 23 | 0 | 23 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.8462 | 100.0000 | 88.4058 | 88.5000 | 61 | 0 | 61 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | D16_PLUS | segdup | homalt | 69.1824 | 91.6667 | 55.5556 | 94.1935 | 11 | 1 | 10 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m0_e0 | homalt | 62.0690 | 75.0000 | 52.9412 | 92.5764 | 9 | 3 | 9 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 22.8571 | 36.3636 | 16.6667 | 72.8814 | 8 | 14 | 8 | 40 | 35 | 87.5000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 53.1073 | 38.5246 | 85.4545 | 67.2619 | 47 | 75 | 47 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 42.4438 | 56.8627 | 33.8583 | 68.1704 | 87 | 66 | 86 | 168 | 147 | 87.5000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.1036 | 99.3780 | 98.8308 | 63.1331 | 2716 | 17 | 2705 | 32 | 28 | 87.5000 | |