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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18901-18950 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.3454 | 95.7944 | 92.9397 | 77.9289 | 1435 | 63 | 1448 | 110 | 87 | 79.0909 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.7565 | 97.0533 | 96.4614 | 41.7715 | 2075 | 63 | 2099 | 77 | 36 | 46.7532 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | homalt | 79.5181 | 67.3575 | 97.0370 | 94.8157 | 130 | 63 | 131 | 4 | 3 | 75.0000 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 98.0296 | 96.3499 | 99.7688 | 70.6232 | 1663 | 63 | 1726 | 4 | 4 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | map_siren | het | 77.1497 | 77.5000 | 76.8025 | 78.9021 | 217 | 63 | 245 | 74 | 50 | 67.5676 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | het | 92.3836 | 93.0464 | 91.7301 | 91.9202 | 843 | 63 | 843 | 76 | 49 | 64.4737 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.5027 | 97.6813 | 99.3380 | 83.9369 | 2654 | 63 | 2551 | 17 | 1 | 5.8824 | |
| jli-custom | SNP | ti | map_l100_m2_e1 | homalt | 99.7997 | 99.6593 | 99.9404 | 59.0260 | 18431 | 63 | 18431 | 11 | 11 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2580 | 95.1314 | 99.4819 | 36.3636 | 1231 | 63 | 1344 | 7 | 7 | 100.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 44.2166 | 52.6316 | 38.1215 | 75.7697 | 70 | 63 | 69 | 112 | 110 | 98.2143 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7437 | 95.5319 | 97.9866 | 71.7029 | 1347 | 63 | 1314 | 27 | 20 | 74.0741 | |
| ghariani-varprowl | SNP | tv | HG002complexvar | homalt | 99.3856 | 99.9338 | 98.8434 | 25.4168 | 95048 | 63 | 95121 | 1113 | 736 | 66.1276 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e1 | homalt | 95.8740 | 93.3404 | 98.5491 | 93.5115 | 883 | 63 | 883 | 13 | 5 | 38.4615 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.2690 | 95.1945 | 99.4359 | 31.3606 | 1248 | 63 | 1234 | 7 | 4 | 57.1429 | |
| gduggal-snapvard | SNP | tv | map_l250_m2_e0 | het | 80.4626 | 96.7526 | 68.8676 | 92.0365 | 1877 | 63 | 1867 | 844 | 29 | 3.4360 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 18.8065 | 16.0000 | 22.8070 | 67.0520 | 12 | 63 | 13 | 44 | 41 | 93.1818 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 83.8465 | 88.9667 | 79.2835 | 61.5799 | 508 | 63 | 509 | 133 | 56 | 42.1053 | |
| gduggal-snapfb | INDEL | I1_5 | map_siren | het | 94.9188 | 96.2522 | 93.6219 | 81.5720 | 1618 | 63 | 1644 | 112 | 17 | 15.1786 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 35.0515 | 0.0000 | 0.0000 | 34 | 63 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D6_15 | map_siren | hetalt | 0.0000 | 36.3636 | 0.0000 | 0.0000 | 36 | 63 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | * | map_l150_m2_e0 | * | 90.6383 | 95.5256 | 86.2268 | 91.9474 | 1345 | 63 | 1346 | 215 | 47 | 21.8605 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 90.4018 | 83.1551 | 99.0323 | 45.3263 | 311 | 63 | 307 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | SNP | * | func_cds | homalt | 99.5466 | 99.0973 | 100.0000 | 21.7886 | 6916 | 63 | 6874 | 0 | 0 | ||
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7388 | 98.3871 | 99.0930 | 40.5118 | 3843 | 63 | 3824 | 35 | 6 | 17.1429 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.9684 | 95.8443 | 92.1644 | 78.1320 | 1453 | 63 | 1435 | 122 | 17 | 13.9344 | |
| gduggal-bwavard | SNP | tv | map_l250_m1_e0 | * | 88.5182 | 97.6199 | 80.9689 | 91.3881 | 2584 | 63 | 2574 | 605 | 16 | 2.6446 | |
| gduggal-snapfb | INDEL | * | map_l100_m1_e0 | hetalt | 60.3494 | 49.1935 | 78.0488 | 93.0034 | 61 | 63 | 32 | 9 | 5 | 55.5556 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e0 | hetalt | 60.8114 | 49.6000 | 78.5714 | 93.3439 | 62 | 63 | 33 | 9 | 5 | 55.5556 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e0 | homalt | 96.6525 | 95.0040 | 98.3593 | 87.2369 | 1198 | 63 | 1199 | 20 | 12 | 60.0000 | |
| gduggal-snapfb | INDEL | * | segdup | homalt | 95.2260 | 93.4375 | 97.0842 | 94.2949 | 897 | 63 | 899 | 27 | 15 | 55.5556 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 42.4779 | 27.5862 | 92.3077 | 89.5161 | 24 | 63 | 24 | 2 | 1 | 50.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 88.6525 | 79.8722 | 99.6016 | 46.2527 | 250 | 63 | 250 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.4144 | 87.9771 | 99.5680 | 73.7230 | 461 | 63 | 461 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e0 | * | 97.0663 | 96.7102 | 97.4251 | 83.8811 | 1852 | 63 | 2308 | 61 | 36 | 59.0164 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 61.6432 | 97.7532 | 45.0148 | 36.4990 | 2741 | 63 | 2745 | 3353 | 3280 | 97.8228 | |
| eyeh-varpipe | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2516 | 98.6776 | 88.3913 | 75.0612 | 4701 | 63 | 4500 | 591 | 44 | 7.4450 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0949 | 95.8388 | 73.3424 | 87.1802 | 1451 | 63 | 1073 | 390 | 39 | 10.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0505 | 97.9987 | 92.2745 | 68.7494 | 3085 | 63 | 2783 | 233 | 42 | 18.0258 | |
| eyeh-varpipe | SNP | ti | map_l150_m1_e0 | het | 98.7761 | 99.4907 | 98.0716 | 79.3788 | 12307 | 63 | 12053 | 237 | 11 | 4.6414 | |
| gduggal-bwafb | INDEL | * | map_l150_m1_e0 | * | 96.3775 | 95.2915 | 97.4886 | 88.7239 | 1275 | 63 | 1281 | 33 | 7 | 21.2121 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m2_e1 | * | 97.4531 | 96.7509 | 98.1656 | 84.4194 | 1876 | 63 | 1873 | 35 | 8 | 22.8571 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 83.1329 | 78.1250 | 88.8268 | 67.2461 | 225 | 63 | 318 | 40 | 25 | 62.5000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4377 | 98.0757 | 98.8024 | 44.1799 | 3211 | 63 | 9405 | 114 | 104 | 91.2281 | |
| ckim-dragen | SNP | tv | map_l150_m0_e0 | het | 97.0162 | 97.7840 | 96.2604 | 84.6993 | 2780 | 63 | 2780 | 108 | 8 | 7.4074 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 88.1132 | 0.0000 | 0.0000 | 467 | 63 | 0 | 0 | 0 | ||
| cchapple-custom | SNP | ti | HG002compoundhet | homalt | 99.5445 | 99.1480 | 99.9443 | 27.6293 | 7331 | 63 | 7173 | 4 | 4 | 100.0000 | |
| cchapple-custom | SNP | ti | map_l250_m2_e1 | homalt | 98.1620 | 96.4447 | 99.9415 | 84.8962 | 1709 | 63 | 1708 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 5.7762 | 27.5862 | 3.2258 | 99.1721 | 24 | 63 | 29 | 870 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | map_l100_m0_e0 | homalt | 99.4968 | 99.1896 | 99.8059 | 56.2121 | 7711 | 63 | 7714 | 15 | 14 | 93.3333 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 92.1781 | 85.6492 | 99.7845 | 35.1049 | 376 | 63 | 463 | 1 | 1 | 100.0000 | |