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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20451-20500 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | het | 99.1441 | 98.9434 | 99.3457 | 70.2153 | 18073 | 193 | 18069 | 119 | 74 | 62.1849 | |
| rpoplin-dv42 | SNP | ti | map_l125_m2_e0 | het | 99.1665 | 98.9669 | 99.3669 | 71.7774 | 18681 | 195 | 18677 | 119 | 74 | 62.1849 | |
| rpoplin-dv42 | SNP | ti | map_l125_m2_e1 | het | 99.1705 | 98.9679 | 99.3738 | 71.8144 | 18890 | 197 | 18886 | 119 | 74 | 62.1849 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 63.4268 | 61.9457 | 64.9805 | 71.6420 | 3171 | 1948 | 4342 | 2340 | 1455 | 62.1795 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1814 | 73.6559 | 85.6031 | 65.5957 | 137 | 49 | 220 | 37 | 23 | 62.1622 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2193 | 95.0054 | 99.5389 | 60.9375 | 7989 | 420 | 7988 | 37 | 23 | 62.1622 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9319 | 72.4891 | 81.9549 | 59.4512 | 498 | 189 | 1308 | 288 | 179 | 62.1528 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.4112 | 86.4829 | 86.3395 | 72.9555 | 659 | 103 | 651 | 103 | 64 | 62.1359 | |
| ciseli-custom | INDEL | * | map_l150_m1_e0 | * | 65.1609 | 58.8939 | 72.9205 | 92.7722 | 788 | 550 | 789 | 293 | 182 | 62.1160 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8586 | 98.2884 | 99.4354 | 55.5329 | 16883 | 294 | 16730 | 95 | 59 | 62.1053 | |
| ghariani-varprowl | SNP | ti | segdup | homalt | 99.5818 | 99.9334 | 99.2326 | 88.7647 | 7500 | 5 | 7500 | 58 | 36 | 62.0690 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 71.9593 | 58.1340 | 94.4123 | 59.6109 | 486 | 350 | 490 | 29 | 18 | 62.0690 | |
| rpoplin-dv42 | SNP | ti | map_l125_m0_e0 | het | 98.8184 | 98.6930 | 98.9442 | 74.5223 | 8155 | 108 | 8153 | 87 | 54 | 62.0690 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.4777 | 92.0158 | 88.9901 | 86.8129 | 1164 | 101 | 1172 | 145 | 90 | 62.0690 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.9292 | 99.9277 | 97.9505 | 67.9429 | 1382 | 1 | 1386 | 29 | 18 | 62.0690 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 87.7988 | 86.5556 | 89.0781 | 44.8149 | 17827 | 2769 | 18620 | 2283 | 1417 | 62.0675 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 4.7580 | 2.6205 | 25.8123 | 79.0152 | 131 | 4868 | 143 | 411 | 255 | 62.0438 | |
| 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 | * | 4.7580 | 2.6205 | 25.8123 | 79.0152 | 131 | 4868 | 143 | 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 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.4884 | 95.1433 | 66.7958 | 80.7253 | 1195 | 61 | 1207 | 600 | 372 | 62.0000 | |
| anovak-vg | INDEL | I1_5 | map_l150_m1_e0 | * | 60.3183 | 62.8458 | 57.9861 | 89.7890 | 318 | 188 | 334 | 242 | 150 | 61.9835 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002compoundhet | * | 84.8012 | 75.3988 | 96.8828 | 44.4562 | 6617 | 2159 | 6620 | 213 | 132 | 61.9718 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3583 | 99.6679 | 91.4059 | 82.1531 | 3902 | 13 | 3914 | 368 | 228 | 61.9565 | |
| ckim-vqsr | INDEL | * | * | het | 99.5204 | 99.5086 | 99.5323 | 62.3713 | 193179 | 954 | 192796 | 906 | 561 | 61.9205 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6370 | 99.4177 | 99.8572 | 53.8488 | 14684 | 86 | 14686 | 21 | 13 | 61.9048 | |
| egarrison-hhga | SNP | tv | HG002complexvar | * | 99.7884 | 99.6287 | 99.9487 | 21.8626 | 245238 | 914 | 245267 | 126 | 78 | 61.9048 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | homalt | 96.5853 | 94.9258 | 98.3037 | 87.2974 | 1216 | 65 | 1217 | 21 | 13 | 61.9048 | |
| gduggal-bwafb | SNP | * | map_l125_m1_e0 | homalt | 99.4923 | 99.1127 | 99.8748 | 68.0895 | 16755 | 150 | 16755 | 21 | 13 | 61.9048 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e0 | homalt | 99.4945 | 99.1137 | 99.8782 | 70.3251 | 17221 | 154 | 17221 | 21 | 13 | 61.9048 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e1 | homalt | 99.4990 | 99.1216 | 99.8793 | 70.3837 | 17378 | 154 | 17378 | 21 | 13 | 61.9048 | |
| gduggal-bwafb | SNP | ti | map_l100_m2_e0 | homalt | 99.5892 | 99.2954 | 99.8846 | 63.9034 | 18180 | 129 | 18180 | 21 | 13 | 61.9048 | |
| gduggal-bwafb | SNP | ti | map_l100_m2_e1 | homalt | 99.5933 | 99.3025 | 99.8858 | 63.9101 | 18365 | 129 | 18365 | 21 | 13 | 61.9048 | |
| ckim-gatk | SNP | tv | HG002compoundhet | het | 99.2595 | 98.9728 | 99.5478 | 55.8932 | 4625 | 48 | 4623 | 21 | 13 | 61.9048 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.0712 | 95.8175 | 98.3581 | 49.4267 | 1260 | 55 | 1258 | 21 | 13 | 61.9048 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.6230 | 99.8728 | 97.4042 | 72.7150 | 785 | 1 | 788 | 21 | 13 | 61.9048 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 22.4138 | 15.8537 | 38.2353 | 86.4000 | 13 | 69 | 13 | 21 | 13 | 61.9048 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002compoundhet | het | 88.3547 | 89.0588 | 87.6616 | 81.8124 | 757 | 93 | 746 | 105 | 65 | 61.9048 | |
| rpoplin-dv42 | SNP | tv | map_l250_m1_e0 | het | 97.6497 | 97.6497 | 97.6497 | 86.6731 | 1745 | 42 | 1745 | 42 | 26 | 61.9048 | |
| cchapple-custom | INDEL | * | map_siren | homalt | 98.6746 | 98.1544 | 99.2003 | 78.4454 | 2606 | 49 | 2605 | 21 | 13 | 61.9048 | |
| jpowers-varprowl | SNP | * | * | homalt | 99.8292 | 99.9606 | 99.6981 | 20.3193 | 1179696 | 465 | 1179822 | 3573 | 2211 | 61.8808 | |
| rpoplin-dv42 | SNP | * | map_l125_m0_e0 | * | 98.7955 | 98.5969 | 98.9950 | 72.9367 | 19113 | 272 | 19110 | 194 | 120 | 61.8557 | |
| gduggal-snapvard | SNP | * | * | homalt | 99.4378 | 98.9468 | 99.9337 | 17.0443 | 1167733 | 12429 | 1158113 | 768 | 475 | 61.8490 | |
| astatham-gatk | INDEL | I1_5 | * | het | 99.5857 | 99.4610 | 99.7107 | 60.4880 | 78615 | 426 | 78596 | 228 | 141 | 61.8421 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9134 | 96.6320 | 97.1965 | 74.4490 | 63150 | 2201 | 65872 | 1900 | 1174 | 61.7895 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9134 | 96.6320 | 97.1965 | 74.4490 | 63150 | 2201 | 65872 | 1900 | 1174 | 61.7895 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | het | 97.5876 | 99.3036 | 95.9298 | 78.0298 | 3137 | 22 | 2899 | 123 | 76 | 61.7886 | |
| gduggal-bwafb | INDEL | * | segdup | * | 97.4038 | 96.1659 | 98.6739 | 94.2256 | 2458 | 98 | 2530 | 34 | 21 | 61.7647 | |
| bgallagher-sentieon | INDEL | * | * | het | 99.5620 | 99.6441 | 99.4801 | 60.4341 | 193442 | 691 | 193072 | 1009 | 623 | 61.7443 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8360 | 99.8663 | 95.8865 | 61.2690 | 20172 | 27 | 20210 | 867 | 535 | 61.7070 | |