PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3701-3750 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 8.9302 | 5.4426 | 24.8629 | 78.7573 | 99 | 1720 | 136 | 411 | 255 | 62.0438 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 8.9302 | 5.4426 | 24.8629 | 78.7573 | 99 | 1720 | 136 | 411 | 255 | 62.0438 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 33.7984 | 28.7018 | 41.0959 | 58.9386 | 692 | 1719 | 690 | 989 | 957 | 96.7644 | |
| astatham-gatk | SNP | tv | map_l150_m2_e0 | * | 91.6536 | 84.8613 | 99.6277 | 80.3003 | 9636 | 1719 | 9634 | 36 | 13 | 36.1111 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | * | 88.8135 | 85.9501 | 91.8743 | 43.5269 | 10516 | 1719 | 10436 | 923 | 829 | 89.8158 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 19.2653 | 18.2294 | 20.4260 | 59.9344 | 383 | 1718 | 374 | 1457 | 1446 | 99.2450 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.0244 | 95.4725 | 96.5827 | 67.7509 | 36186 | 1716 | 36120 | 1278 | 1242 | 97.1831 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 51.3821 | 35.1740 | 95.2929 | 41.6005 | 930 | 1714 | 911 | 45 | 35 | 77.7778 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.0986 | 72.9041 | 93.9468 | 53.8786 | 4609 | 1713 | 4625 | 298 | 190 | 63.7584 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.0986 | 72.9041 | 93.9468 | 53.8786 | 4609 | 1713 | 4625 | 298 | 190 | 63.7584 | |
| jmaeng-gatk | SNP | tv | map_l100_m0_e0 | het | 84.7992 | 76.2808 | 95.4593 | 88.1483 | 5509 | 1713 | 5508 | 262 | 10 | 3.8168 | |
| ciseli-custom | SNP | ti | map_l150_m0_e0 | het | 72.0997 | 66.3920 | 78.8811 | 87.9805 | 3384 | 1713 | 3384 | 906 | 29 | 3.2009 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.3810 | 94.8490 | 75.9939 | 75.6668 | 31524 | 1712 | 31558 | 9969 | 9887 | 99.1775 | |
| qzeng-custom | SNP | ti | map_l125_m0_e0 | homalt | 76.3240 | 61.9906 | 99.2790 | 71.5020 | 2784 | 1707 | 2754 | 20 | 19 | 95.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0585 | 0.0000 | 0.0000 | 1 | 1707 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.2342 | 0.0000 | 0.0000 | 4 | 1704 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.2342 | 0.0000 | 0.0000 | 4 | 1704 | 0 | 0 | 0 | ||
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2598 | 94.5285 | 96.0025 | 68.9889 | 29439 | 1704 | 29443 | 1226 | 756 | 61.6639 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2598 | 94.5285 | 96.0025 | 68.9889 | 29439 | 1704 | 29443 | 1226 | 756 | 61.6639 | |
| mlin-fermikit | INDEL | * | map_siren | * | 83.8340 | 77.0310 | 91.9549 | 78.2144 | 5708 | 1702 | 5715 | 500 | 406 | 81.2000 | |
| ciseli-custom | SNP | ti | map_l100_m2_e1 | homalt | 91.1369 | 90.8132 | 91.4629 | 61.7425 | 16795 | 1699 | 16756 | 1564 | 1245 | 79.6036 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 35.7791 | 0.0000 | 0.0000 | 946 | 1698 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | map_siren | homalt | 97.6833 | 95.5270 | 99.9392 | 52.4384 | 36220 | 1696 | 36180 | 22 | 18 | 81.8182 | |
| jpowers-varprowl | SNP | tv | HG002complexvar | het | 99.3313 | 98.8748 | 99.7919 | 23.6187 | 149035 | 1696 | 149155 | 311 | 60 | 19.2926 | |
| astatham-gatk | SNP | tv | map_l150_m2_e1 | het | 86.7689 | 76.9325 | 99.4894 | 83.9661 | 5653 | 1695 | 5651 | 29 | 8 | 27.5862 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.2908 | 70.4641 | 96.0486 | 65.7173 | 4039 | 1693 | 4035 | 166 | 29 | 17.4699 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.1643 | 88.4244 | 98.4410 | 44.1529 | 12925 | 1692 | 27215 | 431 | 341 | 79.1183 | |
| gduggal-bwavard | SNP | * | HG002compoundhet | homalt | 91.3621 | 84.3072 | 99.7055 | 35.4356 | 9090 | 1692 | 7788 | 23 | 19 | 82.6087 | |
| gduggal-snapplat | INDEL | D16_PLUS | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 1692 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D16_PLUS | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 1692 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 55.2299 | 52.5133 | 58.2428 | 71.2539 | 1870 | 1691 | 1876 | 1345 | 1229 | 91.3755 | |
| gduggal-bwaplat | SNP | * | HG002compoundhet | het | 83.0864 | 88.0801 | 78.6286 | 53.0695 | 12488 | 1690 | 12671 | 3444 | 265 | 7.6945 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 66.8635 | 56.6333 | 81.6046 | 52.1656 | 2207 | 1690 | 1424 | 321 | 304 | 94.7040 | |
| anovak-vg | INDEL | I6_15 | HG002complexvar | het | 40.0214 | 28.2378 | 68.6825 | 52.4803 | 665 | 1690 | 954 | 435 | 281 | 64.5977 | |
| ckim-vqsr | SNP | tv | map_l250_m2_e1 | * | 58.7446 | 42.0439 | 97.4563 | 97.2616 | 1226 | 1690 | 1226 | 32 | 0 | 0.0000 | |
| qzeng-custom | SNP | tv | map_l100_m0_e0 | het | 85.0006 | 76.5993 | 95.4718 | 87.4215 | 5532 | 1690 | 5524 | 262 | 216 | 82.4427 | |
| rpoplin-dv42 | SNP | * | * | * | 99.9587 | 99.9447 | 99.9728 | 19.0681 | 3052930 | 1689 | 3052766 | 832 | 433 | 52.0433 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | * | 95.9629 | 94.9405 | 97.0075 | 49.9241 | 31675 | 1688 | 31023 | 957 | 917 | 95.8203 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | homalt | 91.1050 | 90.7805 | 91.4319 | 61.7718 | 16621 | 1688 | 16583 | 1554 | 1237 | 79.6010 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | * | 94.9238 | 93.3394 | 96.5629 | 79.3964 | 23599 | 1684 | 23599 | 840 | 407 | 48.4524 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 58.2911 | 54.3260 | 62.8805 | 55.6252 | 2003 | 1684 | 2004 | 1183 | 1139 | 96.2806 | |
| gduggal-bwavard | SNP | * | map_siren | homalt | 98.4056 | 96.9468 | 99.9088 | 52.1457 | 53472 | 1684 | 52608 | 48 | 40 | 83.3333 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 71.2981 | 57.7309 | 93.2011 | 73.4101 | 2300 | 1684 | 2303 | 168 | 53 | 31.5476 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 84.7019 | 75.5446 | 96.3855 | 35.1952 | 5202 | 1684 | 5200 | 195 | 193 | 98.9744 | |
| ciseli-custom | INDEL | I1_5 | HG002complexvar | homalt | 88.0614 | 87.4926 | 88.6376 | 45.0592 | 11766 | 1682 | 11522 | 1477 | 1282 | 86.7976 | |
| jpowers-varprowl | INDEL | I1_5 | HG002complexvar | hetalt | 0.0000 | 2.5492 | 0.0000 | 0.0000 | 44 | 1682 | 0 | 0 | 0 | ||
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 84.1619 | 82.2267 | 86.1905 | 45.3886 | 7777 | 1681 | 7783 | 1247 | 1228 | 98.4763 | |
| ciseli-custom | SNP | ti | map_l100_m1_e0 | homalt | 90.9965 | 90.6459 | 91.3498 | 59.1340 | 16280 | 1680 | 16242 | 1538 | 1227 | 79.7789 | |
| gduggal-bwavard | INDEL | I6_15 | HG002complexvar | * | 69.2732 | 64.9624 | 74.1967 | 53.0461 | 3113 | 1679 | 3048 | 1060 | 990 | 93.3962 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 91.0608 | 87.8273 | 94.5415 | 37.6092 | 12107 | 1678 | 12020 | 694 | 633 | 91.2104 | |