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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10351-10400 / 86044 show all | |||||||||||||||
| jli-custom | SNP | tv | map_l100_m2_e1 | * | 99.4258 | 99.3157 | 99.5362 | 64.2630 | 25110 | 173 | 25109 | 117 | 30 | 25.6410 | |
| jmaeng-gatk | SNP | * | map_l250_m1_e0 | * | 68.9230 | 53.4340 | 97.0573 | 96.2285 | 3859 | 3363 | 3859 | 117 | 9 | 7.6923 | |
| ltrigg-rtg1 | SNP | ti | * | homalt | 99.9664 | 99.9474 | 99.9854 | 16.2302 | 802614 | 422 | 802519 | 117 | 112 | 95.7265 | |
| ltrigg-rtg1 | INDEL | * | HG002compoundhet | het | 96.0922 | 95.0904 | 97.1154 | 68.4751 | 3893 | 201 | 3939 | 117 | 62 | 52.9915 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.8029 | 0.4065 | 32.3699 | 65.8777 | 1 | 245 | 56 | 117 | 46 | 39.3162 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m2_e0 | het | 87.3970 | 98.7055 | 78.4133 | 92.5365 | 305 | 4 | 425 | 117 | 42 | 35.8974 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 25.4980 | 31.3725 | 21.4765 | 98.0147 | 32 | 70 | 32 | 117 | 5 | 4.2735 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 87.5446 | 82.8245 | 92.8353 | 37.8851 | 3337 | 692 | 1516 | 117 | 56 | 47.8632 | |
| ghariani-varprowl | SNP | tv | map_siren | homalt | 99.3038 | 99.2865 | 99.3211 | 57.8404 | 17117 | 123 | 17117 | 117 | 71 | 60.6838 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8309 | 99.3772 | 98.2905 | 53.9062 | 6702 | 42 | 6727 | 117 | 6 | 5.1282 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 83.0914 | 93.1398 | 75.0000 | 56.9061 | 353 | 26 | 351 | 117 | 113 | 96.5812 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2273 | 98.7916 | 99.6668 | 58.8530 | 34991 | 428 | 34997 | 117 | 50 | 42.7350 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3853 | 98.0620 | 98.7107 | 74.2575 | 8956 | 177 | 8958 | 117 | 19 | 16.2393 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3853 | 98.0620 | 98.7107 | 74.2575 | 8956 | 177 | 8958 | 117 | 19 | 16.2393 | |
| qzeng-custom | INDEL | D6_15 | map_siren | het | 82.9558 | 91.7857 | 75.6757 | 84.8504 | 257 | 23 | 364 | 117 | 17 | 14.5299 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e1 | het | 99.2688 | 98.9372 | 99.6025 | 71.5784 | 29325 | 315 | 29319 | 117 | 29 | 24.7863 | |
| hfeng-pmm2 | SNP | * | segdup | het | 99.5302 | 99.7344 | 99.3269 | 90.9417 | 17271 | 46 | 17265 | 117 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | het | 81.8478 | 78.8551 | 85.0765 | 66.7091 | 675 | 181 | 667 | 117 | 113 | 96.5812 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1804 | 98.6259 | 99.7411 | 70.8758 | 45074 | 628 | 45075 | 117 | 14 | 11.9658 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1804 | 98.6259 | 99.7411 | 70.8758 | 45074 | 628 | 45075 | 117 | 14 | 11.9658 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | * | 92.6519 | 97.7324 | 88.0734 | 92.1312 | 862 | 20 | 864 | 117 | 6 | 5.1282 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 92.8582 | 89.4839 | 96.4970 | 68.0383 | 3242 | 381 | 3223 | 117 | 42 | 35.8974 | |
| cchapple-custom | INDEL | I1_5 | HG002complexvar | * | 99.1800 | 98.7291 | 99.6350 | 52.8581 | 32939 | 424 | 31939 | 117 | 104 | 88.8889 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.9346 | 99.2616 | 98.6098 | 64.3360 | 8334 | 62 | 8299 | 117 | 105 | 89.7436 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e0 | homalt | 83.8286 | 85.9247 | 81.8323 | 83.8435 | 525 | 86 | 527 | 117 | 100 | 85.4701 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2504 | 99.2513 | 99.2495 | 62.6333 | 15642 | 118 | 15472 | 117 | 78 | 66.6667 | |
| ckim-dragen | INDEL | * | segdup | het | 95.8400 | 99.3861 | 92.5383 | 95.9567 | 1457 | 9 | 1451 | 117 | 2 | 1.7094 | |
| egarrison-hhga | SNP | ti | HG002complexvar | homalt | 99.8937 | 99.8480 | 99.9395 | 18.4037 | 193169 | 294 | 193188 | 117 | 94 | 80.3419 | |
| dgrover-gatk | SNP | * | map_l250_m2_e1 | * | 98.4461 | 98.3598 | 98.5325 | 90.3561 | 7856 | 131 | 7856 | 117 | 30 | 25.6410 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.1628 | 98.3287 | 75.1064 | 48.2379 | 353 | 6 | 353 | 117 | 116 | 99.1453 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.8732 | 68.2411 | 96.2857 | 80.2619 | 3034 | 1412 | 3033 | 117 | 59 | 50.4274 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 92.9382 | 92.2964 | 93.5890 | 71.7186 | 1258 | 105 | 1708 | 117 | 101 | 86.3248 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 85.1147 | 96.8338 | 75.9259 | 61.8824 | 367 | 12 | 369 | 117 | 115 | 98.2906 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.6431 | 96.1084 | 99.2277 | 42.1750 | 10002 | 405 | 15032 | 117 | 72 | 61.5385 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 75.8922 | 93.2127 | 64.0000 | 92.1573 | 206 | 15 | 208 | 117 | 11 | 9.4017 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 83.8715 | 77.0358 | 92.0384 | 65.7901 | 1419 | 423 | 1341 | 116 | 85 | 73.2759 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.4262 | 94.1386 | 98.8277 | 32.4619 | 9797 | 610 | 9779 | 116 | 87 | 75.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.4514 | 96.5009 | 98.4209 | 44.2767 | 6481 | 235 | 7230 | 116 | 68 | 58.6207 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.5129 | 76.5088 | 96.9190 | 34.7374 | 3651 | 1121 | 3649 | 116 | 114 | 98.2759 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 89.2536 | 84.1610 | 95.0022 | 64.8333 | 2237 | 421 | 2205 | 116 | 101 | 87.0690 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.4568 | 95.9554 | 85.5542 | 61.1138 | 688 | 29 | 687 | 116 | 94 | 81.0345 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 71.0414 | 97.4522 | 55.8935 | 62.8531 | 153 | 4 | 147 | 116 | 4 | 3.4483 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 84.1984 | 77.2530 | 92.5161 | 66.6953 | 1423 | 419 | 1434 | 116 | 91 | 78.4483 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.6977 | 98.9130 | 94.5794 | 80.5719 | 2002 | 22 | 2024 | 116 | 6 | 5.1724 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9719 | 93.8052 | 98.2411 | 42.7766 | 6481 | 428 | 6479 | 116 | 88 | 75.8621 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | het | 99.0834 | 98.4264 | 99.7493 | 64.4229 | 46160 | 738 | 46162 | 116 | 41 | 35.3448 | |
| ndellapenna-hhga | SNP | ti | HG002complexvar | het | 99.7687 | 99.5752 | 99.9630 | 16.8677 | 313429 | 1337 | 313430 | 116 | 49 | 42.2414 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e0 | het | 74.8173 | 62.7655 | 92.5973 | 79.8974 | 1448 | 859 | 1451 | 116 | 68 | 58.6207 | |
| jpowers-varprowl | INDEL | I6_15 | HG002complexvar | homalt | 84.7204 | 80.4778 | 89.4353 | 51.1131 | 977 | 237 | 982 | 116 | 103 | 88.7931 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 21.4797 | 14.7388 | 39.5833 | 70.4160 | 79 | 457 | 76 | 116 | 116 | 100.0000 | |