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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71401-71450 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D16_PLUS | map_l125_m2_e1 | * | 51.5647 | 89.2857 | 36.2500 | 95.6873 | 25 | 3 | 29 | 51 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 78.8266 | 91.1111 | 69.4611 | 67.7606 | 41 | 4 | 116 | 51 | 30 | 58.8235 | |
| qzeng-custom | SNP | ti | map_l125_m1_e0 | homalt | 82.9138 | 71.1453 | 99.3472 | 63.5077 | 7858 | 3187 | 7762 | 51 | 50 | 98.0392 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.1443 | 94.3879 | 97.9673 | 65.1092 | 2506 | 149 | 2458 | 51 | 44 | 86.2745 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 47.8883 | 35.6275 | 73.0159 | 53.4483 | 88 | 159 | 138 | 51 | 50 | 98.0392 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | * | 81.2227 | 72.9412 | 91.6256 | 96.8509 | 558 | 207 | 558 | 51 | 14 | 27.4510 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | het | 79.8457 | 72.3776 | 89.0323 | 97.1314 | 414 | 158 | 414 | 51 | 14 | 27.4510 | |
| gduggal-snapvard | INDEL | C1_5 | map_l100_m0_e0 | * | 0.0000 | 0.0000 | 37.0370 | 95.7547 | 0 | 0 | 30 | 51 | 4 | 7.8431 | |
| gduggal-snapfb | SNP | ti | func_cds | het | 99.6775 | 99.9530 | 99.4036 | 28.0582 | 8500 | 4 | 8500 | 51 | 1 | 1.9608 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 70.4495 | 67.4641 | 73.7113 | 75.8706 | 141 | 68 | 143 | 51 | 50 | 98.0392 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 66.6667 | 76.8421 | 58.8710 | 85.4801 | 73 | 22 | 73 | 51 | 49 | 96.0784 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.1125 | 83.1756 | 93.6725 | 88.6078 | 791 | 160 | 755 | 51 | 22 | 43.1373 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1282 | 98.9531 | 99.3039 | 35.7393 | 7278 | 77 | 7276 | 51 | 3 | 5.8824 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 43.2688 | 35.3933 | 55.6522 | 57.2491 | 63 | 115 | 64 | 51 | 38 | 74.5098 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6175 | 97.2128 | 98.0256 | 69.1545 | 2581 | 74 | 2532 | 51 | 39 | 76.4706 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 44.5986 | 69.2308 | 32.8947 | 40.6250 | 9 | 4 | 25 | 51 | 46 | 90.1961 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5900 | 96.6582 | 98.5399 | 68.6164 | 3442 | 119 | 3442 | 51 | 43 | 84.3137 | |
| raldana-dualsentieon | INDEL | I6_15 | HG002compoundhet | het | 75.0365 | 79.3269 | 71.1864 | 85.5155 | 165 | 43 | 126 | 51 | 51 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | * | hetalt | 96.4651 | 93.5954 | 99.5163 | 62.8772 | 10478 | 717 | 10493 | 51 | 48 | 94.1176 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9102 | 91.6918 | 92.1296 | 76.9886 | 607 | 55 | 597 | 51 | 42 | 82.3529 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.8560 | 99.8560 | 99.8559 | 61.0125 | 35368 | 51 | 35352 | 51 | 31 | 60.7843 | |
| raldana-dualsentieon | SNP | tv | map_l150_m0_e0 | * | 98.6080 | 98.4427 | 98.7737 | 78.9854 | 4109 | 65 | 4108 | 51 | 2 | 3.9216 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.8158 | 98.6325 | 98.9998 | 83.5908 | 5049 | 70 | 5048 | 51 | 37 | 72.5490 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | * | 92.4901 | 89.3812 | 95.8231 | 64.9842 | 1170 | 139 | 1170 | 51 | 30 | 58.8235 | |
| ckim-vqsr | SNP | ti | map_l150_m0_e0 | * | 60.7533 | 43.9130 | 98.5441 | 93.9394 | 3452 | 4409 | 3452 | 51 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m0_e0 | het | 72.0358 | 56.8570 | 98.2706 | 94.0511 | 2898 | 2199 | 2898 | 51 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9211 | 94.3694 | 99.6146 | 31.5700 | 12989 | 775 | 13182 | 51 | 50 | 98.0392 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.0420 | 87.8244 | 94.5043 | 58.5344 | 880 | 122 | 877 | 51 | 34 | 66.6667 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e0 | * | 99.4693 | 99.1110 | 99.8302 | 70.7438 | 29989 | 269 | 29989 | 51 | 24 | 47.0588 | |
| dgrover-gatk | SNP | * | HG002compoundhet | * | 99.8063 | 99.8102 | 99.8025 | 41.2435 | 25773 | 49 | 25766 | 51 | 36 | 70.5882 | |
| ckim-isaac | SNP | * | map_l150_m2_e0 | * | 70.6023 | 54.6496 | 99.7079 | 77.9961 | 17407 | 14445 | 17408 | 51 | 12 | 23.5294 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1462 | 92.9163 | 99.6087 | 28.2901 | 12789 | 975 | 12983 | 51 | 51 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0845 | 92.7950 | 99.6157 | 30.7178 | 13021 | 1011 | 13220 | 51 | 51 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | het | 95.6747 | 95.2060 | 96.1480 | 92.4743 | 1271 | 64 | 1273 | 51 | 5 | 9.8039 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | het | 95.6234 | 94.9676 | 96.2882 | 93.0044 | 1321 | 70 | 1323 | 51 | 5 | 9.8039 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | het | 95.6019 | 94.8864 | 96.3283 | 93.0623 | 1336 | 72 | 1338 | 51 | 5 | 9.8039 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 75.7737 | 66.0714 | 88.8158 | 57.1831 | 407 | 209 | 405 | 51 | 47 | 92.1569 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.0619 | 94.5157 | 99.7491 | 65.9214 | 20698 | 1201 | 20677 | 52 | 34 | 65.3846 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 84.9987 | 79.7856 | 90.9408 | 61.8351 | 521 | 132 | 522 | 52 | 45 | 86.5385 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.4420 | 91.1431 | 95.8599 | 59.1279 | 1204 | 117 | 1204 | 52 | 39 | 75.0000 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | * | 99.4698 | 99.1135 | 99.8287 | 70.7805 | 30298 | 271 | 30298 | 52 | 24 | 46.1538 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 19.7111 | 11.0907 | 88.4956 | 74.5925 | 302 | 2421 | 400 | 52 | 46 | 88.4615 | |
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | het | 96.7178 | 96.4794 | 96.9573 | 84.9956 | 1288 | 47 | 1657 | 52 | 30 | 57.6923 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | het | 96.7811 | 96.4774 | 97.0868 | 85.6373 | 1342 | 49 | 1733 | 52 | 30 | 57.6923 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8950 | 94.3201 | 99.6144 | 34.3188 | 13235 | 797 | 13433 | 52 | 50 | 96.1538 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4823 | 96.9868 | 97.9829 | 69.3497 | 2575 | 80 | 2526 | 52 | 40 | 76.9231 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0006 | 75.5556 | 92.0732 | 84.2949 | 544 | 176 | 604 | 52 | 4 | 7.6923 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | * | 80.0185 | 66.7647 | 99.8378 | 62.0110 | 32001 | 15930 | 32005 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | * | 80.3204 | 67.1841 | 99.8422 | 64.2807 | 32894 | 16067 | 32898 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | * | 80.3859 | 67.2749 | 99.8441 | 64.2491 | 33291 | 16194 | 33295 | 52 | 10 | 19.2308 | |