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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9401-9450 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | * | 80.1656 | 73.0368 | 88.8365 | 94.8724 | 1051 | 388 | 1130 | 142 | 20 | 14.0845 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e0 | * | 98.1797 | 98.1611 | 98.1984 | 88.2926 | 7740 | 145 | 7740 | 142 | 6 | 4.2254 | |
| raldana-dualsentieon | SNP | tv | map_l125_m1_e0 | * | 99.1952 | 99.2757 | 99.1147 | 70.0226 | 15900 | 116 | 15898 | 142 | 4 | 2.8169 | |
| rpoplin-dv42 | SNP | tv | map_l100_m2_e0 | het | 99.1350 | 99.1697 | 99.1004 | 66.6194 | 15646 | 131 | 15642 | 142 | 59 | 41.5493 | |
| dgrover-gatk | SNP | ti | map_l150_m1_e0 | * | 99.2284 | 99.1782 | 99.2787 | 76.9359 | 19550 | 162 | 19546 | 142 | 35 | 24.6479 | |
| ckim-isaac | SNP | * | map_siren | * | 84.8645 | 73.7800 | 99.8686 | 51.5315 | 107887 | 38341 | 107900 | 142 | 41 | 28.8732 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 78.0049 | 67.7625 | 91.8950 | 70.9693 | 1278 | 608 | 1610 | 142 | 132 | 92.9577 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 48.8339 | 78.4314 | 35.4545 | 62.0035 | 80 | 22 | 78 | 142 | 137 | 96.4789 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3529 | 89.7315 | 95.1320 | 41.7997 | 2473 | 283 | 2775 | 142 | 134 | 94.3662 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 84.3168 | 83.7696 | 84.8712 | 76.9763 | 800 | 155 | 791 | 141 | 92 | 65.2482 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 48.6766 | 60.9756 | 40.5063 | 39.2308 | 25 | 16 | 96 | 141 | 140 | 99.2908 | |
| eyeh-varpipe | INDEL | I1_5 | * | hetalt | 60.5783 | 43.9661 | 97.3679 | 73.2444 | 4922 | 6273 | 5216 | 141 | 132 | 93.6170 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 31.7845 | 22.0149 | 57.1429 | 50.2269 | 118 | 418 | 188 | 141 | 135 | 95.7447 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e1 | het | 97.2238 | 97.1315 | 97.3163 | 90.3357 | 5113 | 151 | 5113 | 141 | 34 | 24.1135 | |
| hfeng-pmm2 | SNP | tv | map_l100_m1_e0 | het | 99.2617 | 99.4357 | 99.0884 | 69.5075 | 15330 | 87 | 15326 | 141 | 12 | 8.5106 | |
| hfeng-pmm2 | SNP | tv | map_l125_m1_e0 | * | 99.2768 | 99.4318 | 99.1223 | 72.3649 | 15925 | 91 | 15923 | 141 | 16 | 11.3475 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e0 | * | 99.2975 | 99.4481 | 99.1474 | 73.9287 | 16398 | 91 | 16396 | 141 | 16 | 11.3475 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | * | 99.3046 | 99.4537 | 99.1559 | 73.9708 | 16566 | 91 | 16564 | 141 | 16 | 11.3475 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e1 | het | 99.4275 | 99.3320 | 99.5233 | 72.3246 | 29442 | 198 | 29436 | 141 | 13 | 9.2199 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 62.3646 | 92.6829 | 46.9925 | 68.5950 | 38 | 3 | 125 | 141 | 118 | 83.6879 | |
| mlin-fermikit | SNP | * | map_l150_m1_e0 | het | 54.1179 | 37.3680 | 98.0827 | 65.3701 | 7218 | 12098 | 7213 | 141 | 5 | 3.5461 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.6400 | 76.3498 | 87.7178 | 52.8542 | 1004 | 311 | 1007 | 141 | 123 | 87.2340 | |
| ltrigg-rtg2 | SNP | tv | segdup | * | 98.9872 | 99.6132 | 98.3690 | 88.4663 | 8499 | 33 | 8504 | 141 | 21 | 14.8936 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.2608 | 90.4082 | 65.9420 | 80.5543 | 443 | 47 | 273 | 141 | 138 | 97.8723 | |
| jmaeng-gatk | INDEL | * | map_l100_m1_e0 | het | 96.0483 | 98.2103 | 93.9795 | 90.0412 | 2195 | 40 | 2201 | 141 | 14 | 9.9291 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e0 | het | 96.1235 | 98.1795 | 94.1518 | 90.6489 | 2265 | 42 | 2270 | 141 | 14 | 9.9291 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e1 | het | 96.1817 | 98.2074 | 94.2378 | 90.6863 | 2301 | 42 | 2306 | 141 | 14 | 9.9291 | |
| asubramanian-gatk | INDEL | C1_5 | HG002complexvar | * | 0.0000 | 71.4286 | 0.0000 | 75.2632 | 5 | 2 | 0 | 141 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | segdup | * | 98.1237 | 96.8005 | 99.4836 | 92.0357 | 27169 | 898 | 27163 | 141 | 14 | 9.9291 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 38.1138 | 46.0000 | 32.5359 | 39.0671 | 23 | 27 | 68 | 141 | 121 | 85.8156 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 27.3104 | 23.7037 | 32.2115 | 41.0765 | 32 | 103 | 67 | 141 | 109 | 77.3050 | |
| anovak-vg | SNP | tv | segdup | het | 97.1722 | 97.0305 | 97.3143 | 94.5962 | 5130 | 157 | 5109 | 141 | 42 | 29.7872 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2879 | 97.3995 | 97.1766 | 75.1789 | 4869 | 130 | 4853 | 141 | 104 | 73.7589 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2879 | 97.3995 | 97.1766 | 75.1789 | 4869 | 130 | 4853 | 141 | 104 | 73.7589 | |
| dgrover-gatk | SNP | ti | map_l150_m2_e1 | het | 99.0483 | 99.1779 | 98.9191 | 81.1057 | 12908 | 107 | 12904 | 141 | 30 | 21.2766 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | hetalt | 84.8570 | 74.1223 | 99.2275 | 55.5672 | 18664 | 6516 | 18112 | 141 | 123 | 87.2340 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 72.9935 | 63.5053 | 85.8149 | 62.8966 | 837 | 481 | 853 | 141 | 132 | 93.6170 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 80.9329 | 94.5455 | 70.7469 | 64.8688 | 312 | 18 | 341 | 141 | 126 | 89.3617 | |
| ckim-vqsr | INDEL | D16_PLUS | * | * | 97.9266 | 97.9363 | 97.9170 | 71.5505 | 6644 | 140 | 6628 | 141 | 105 | 74.4681 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 95.9560 | 96.0290 | 95.8832 | 44.2273 | 3313 | 137 | 3284 | 141 | 11 | 7.8014 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m1_e0 | het | 85.1353 | 81.5550 | 89.0443 | 91.4683 | 986 | 223 | 1146 | 141 | 27 | 19.1489 | |
| rpoplin-dv42 | SNP | tv | map_l100_m1_e0 | het | 99.1180 | 99.1503 | 99.0858 | 64.8238 | 15286 | 131 | 15282 | 141 | 59 | 41.8440 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 93.9710 | 90.6042 | 97.5975 | 61.3424 | 5728 | 594 | 5728 | 141 | 133 | 94.3262 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 93.9710 | 90.6042 | 97.5975 | 61.3424 | 5728 | 594 | 5728 | 141 | 133 | 94.3262 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | * | 98.7643 | 98.7911 | 98.7375 | 67.3276 | 10950 | 134 | 10949 | 140 | 63 | 45.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0441 | 98.5197 | 99.5742 | 73.0561 | 32744 | 492 | 32737 | 140 | 116 | 82.8571 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5527 | 99.8046 | 97.3318 | 50.7832 | 5107 | 10 | 5107 | 140 | 139 | 99.2857 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6771 | 99.7888 | 97.5899 | 57.2270 | 5669 | 12 | 5669 | 140 | 139 | 99.2857 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.6527 | 80.4403 | 87.1324 | 45.1060 | 950 | 231 | 948 | 140 | 140 | 100.0000 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | het | 99.7293 | 99.5044 | 99.9553 | 17.6005 | 313206 | 1560 | 313156 | 140 | 49 | 35.0000 | |