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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84001-84050 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | map_l125_m2_e0 | het | 95.3314 | 99.0570 | 91.8760 | 83.3511 | 18698 | 178 | 18694 | 1653 | 140 | 8.4695 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.8526 | 95.8946 | 79.3688 | 62.7255 | 5606 | 240 | 6363 | 1654 | 1576 | 95.2842 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.8526 | 95.8946 | 79.3688 | 62.7255 | 5606 | 240 | 6363 | 1654 | 1576 | 95.2842 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | * | 74.8997 | 81.6117 | 69.2079 | 91.2986 | 3737 | 842 | 3722 | 1656 | 368 | 22.2222 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.1962 | 96.6768 | 88.1125 | 56.1680 | 5411 | 186 | 12282 | 1657 | 662 | 39.9517 | |
| gduggal-bwafb | INDEL | I1_5 | * | * | 97.8814 | 96.8991 | 98.8838 | 56.3942 | 145992 | 4672 | 146789 | 1657 | 1400 | 84.4900 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.9003 | 95.1929 | 90.7155 | 79.9240 | 16159 | 816 | 16190 | 1657 | 193 | 11.6476 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.9003 | 95.1929 | 90.7155 | 79.9240 | 16159 | 816 | 16190 | 1657 | 193 | 11.6476 | |
| ghariani-varprowl | SNP | * | map_l100_m2_e1 | het | 97.8415 | 99.1599 | 96.5577 | 75.0527 | 46504 | 394 | 46507 | 1658 | 256 | 15.4403 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | het | 95.3643 | 99.0674 | 91.9280 | 83.3869 | 18909 | 178 | 18905 | 1660 | 140 | 8.4337 | |
| jmaeng-gatk | SNP | * | map_siren | het | 95.7096 | 93.4477 | 98.0837 | 71.4678 | 85029 | 5962 | 85015 | 1661 | 101 | 6.0807 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 54.1237 | 72.0257 | 43.3492 | 26.9375 | 224 | 87 | 1271 | 1661 | 1654 | 99.5786 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 15.1782 | 85.4545 | 8.3287 | 79.8084 | 141 | 24 | 151 | 1662 | 21 | 1.2635 | |
| gduggal-snapfb | SNP | * | HG002complexvar | homalt | 99.5552 | 99.6857 | 99.4250 | 21.2913 | 287668 | 907 | 287733 | 1664 | 399 | 23.9784 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 36.5445 | 33.8941 | 39.6445 | 65.7686 | 1088 | 2122 | 1093 | 1664 | 1651 | 99.2188 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 66.6372 | 86.2331 | 54.2983 | 88.7662 | 2042 | 326 | 1977 | 1664 | 92 | 5.5289 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | * | 96.7576 | 98.8796 | 94.7247 | 79.7203 | 29919 | 339 | 29915 | 1666 | 151 | 9.0636 | |
| ciseli-custom | SNP | tv | map_l150_m1_e0 | * | 76.2235 | 70.9861 | 82.2954 | 80.7468 | 7746 | 3166 | 7744 | 1666 | 387 | 23.2293 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 90.8942 | 97.5031 | 85.1244 | 74.2945 | 9450 | 242 | 9545 | 1668 | 246 | 14.7482 | |
| ghariani-varprowl | SNP | * | map_l100_m1_e0 | * | 98.3728 | 99.0277 | 97.7266 | 70.1377 | 71699 | 704 | 71702 | 1668 | 318 | 19.0647 | |
| mlin-fermikit | SNP | tv | map_l100_m1_e0 | homalt | 71.5194 | 65.9516 | 78.1139 | 49.8226 | 5964 | 3079 | 5964 | 1671 | 1585 | 94.8534 | |
| eyeh-varpipe | INDEL | I1_5 | * | het | 97.6534 | 97.4342 | 97.8735 | 52.4121 | 77013 | 2028 | 76909 | 1671 | 1507 | 90.1855 | |
| eyeh-varpipe | SNP | * | map_l100_m1_e0 | * | 98.6894 | 99.7348 | 97.6657 | 67.8112 | 72211 | 192 | 69996 | 1673 | 51 | 3.0484 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | * | 96.7790 | 98.8910 | 94.7553 | 79.7616 | 30230 | 339 | 30226 | 1673 | 151 | 9.0257 | |
| anovak-vg | INDEL | I16_PLUS | * | * | 32.9342 | 25.0588 | 48.0286 | 39.2493 | 1598 | 4779 | 1547 | 1674 | 1112 | 66.4277 | |
| gduggal-snapvard | INDEL | * | * | homalt | 86.7363 | 77.5779 | 98.3465 | 41.7135 | 97105 | 28066 | 99624 | 1675 | 1571 | 93.7910 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 67.9552 | 65.9379 | 70.1000 | 59.0467 | 4011 | 2072 | 3927 | 1675 | 1645 | 98.2090 | |
| qzeng-custom | INDEL | I6_15 | * | het | 91.4351 | 95.6444 | 87.5806 | 52.1449 | 9596 | 437 | 11812 | 1675 | 583 | 34.8060 | |
| ndellapenna-hhga | INDEL | D6_15 | * | het | 92.4134 | 97.5414 | 87.7976 | 56.6240 | 11307 | 285 | 12059 | 1676 | 1576 | 94.0334 | |
| gduggal-snapfb | SNP | * | map_l100_m1_e0 | het | 97.2532 | 98.1503 | 96.3723 | 66.8525 | 44520 | 839 | 44524 | 1676 | 659 | 39.3198 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e0 | het | 97.9986 | 99.6659 | 96.3860 | 71.4860 | 46244 | 155 | 44753 | 1678 | 34 | 2.0262 | |
| ciseli-custom | SNP | * | map_l250_m1_e0 | * | 68.5054 | 64.2204 | 73.4031 | 91.7933 | 4638 | 2584 | 4631 | 1678 | 322 | 19.1895 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | homalt | 72.0127 | 66.5183 | 78.4964 | 53.5791 | 6129 | 3085 | 6129 | 1679 | 1592 | 94.8183 | |
| jmaeng-gatk | SNP | * | map_siren | * | 94.0415 | 89.7742 | 98.7347 | 67.2383 | 131275 | 14953 | 131252 | 1682 | 121 | 7.1938 | |
| mlin-fermikit | INDEL | D6_15 | * | het | 90.4589 | 94.5825 | 86.6799 | 51.7766 | 10964 | 628 | 10952 | 1683 | 1653 | 98.2175 | |
| ciseli-custom | SNP | * | map_l125_m1_e0 | homalt | 88.0175 | 86.4537 | 89.6388 | 65.9316 | 14615 | 2290 | 14569 | 1684 | 1350 | 80.1663 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e1 | homalt | 72.1476 | 66.6523 | 78.6303 | 53.6694 | 6200 | 3102 | 6200 | 1685 | 1598 | 94.8368 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.8582 | 76.3275 | 79.4516 | 54.8804 | 4643 | 1440 | 6519 | 1686 | 1004 | 59.5492 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.5223 | 75.9394 | 87.9912 | 60.0478 | 12186 | 3861 | 12361 | 1687 | 1429 | 84.7066 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.2413 | 93.5539 | 90.9650 | 64.4972 | 16995 | 1171 | 16995 | 1688 | 1649 | 97.6896 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.2413 | 93.5539 | 90.9650 | 64.4972 | 16995 | 1171 | 16995 | 1688 | 1649 | 97.6896 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e1 | het | 98.0064 | 99.6695 | 96.3978 | 71.5205 | 46743 | 155 | 45226 | 1690 | 34 | 2.0118 | |
| jpowers-varprowl | INDEL | I1_5 | HG002complexvar | * | 92.7158 | 90.8192 | 94.6934 | 52.3150 | 30300 | 3063 | 30175 | 1691 | 1600 | 94.6186 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e0 | het | 97.2954 | 98.1875 | 96.4194 | 69.0247 | 45558 | 841 | 45562 | 1692 | 659 | 38.9480 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e1 | het | 97.3145 | 98.2025 | 96.4425 | 69.0883 | 46055 | 843 | 46059 | 1699 | 659 | 38.7875 | |
| eyeh-varpipe | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.3253 | 99.6076 | 95.1454 | 61.7302 | 35280 | 139 | 33318 | 1700 | 145 | 8.5294 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 79.3428 | 82.9101 | 76.0698 | 72.6664 | 5322 | 1097 | 5404 | 1700 | 930 | 54.7059 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 79.3428 | 82.9101 | 76.0698 | 72.6664 | 5322 | 1097 | 5404 | 1700 | 930 | 54.7059 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.5434 | 96.4420 | 78.4876 | 62.7159 | 5638 | 208 | 6217 | 1704 | 1642 | 96.3615 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.5434 | 96.4420 | 78.4876 | 62.7159 | 5638 | 208 | 6217 | 1704 | 1642 | 96.3615 | |