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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37101-37150 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | * | tech_badpromoters | * | 92.8814 | 87.2611 | 99.2754 | 66.7470 | 137 | 20 | 137 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 89.6882 | 87.2608 | 92.2546 | 52.5070 | 1870 | 273 | 1870 | 157 | 144 | 91.7197 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.9687 | 87.2567 | 99.4808 | 35.1295 | 2376 | 347 | 2491 | 13 | 13 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.9687 | 87.2567 | 99.4808 | 35.1295 | 2376 | 347 | 2491 | 13 | 13 | 100.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 75.2746 | 87.2549 | 66.1871 | 95.4411 | 89 | 13 | 92 | 47 | 3 | 6.3830 | |
| astatham-gatk | SNP | * | map_l125_m0_e0 | * | 93.0056 | 87.2530 | 99.5702 | 78.3613 | 16914 | 2471 | 16911 | 73 | 29 | 39.7260 | |
| gduggal-bwaplat | SNP | ti | map_siren | het | 92.8447 | 87.2527 | 99.2026 | 72.7353 | 54430 | 7952 | 54492 | 438 | 111 | 25.3425 | |
| gduggal-snapvard | INDEL | D1_5 | HG002complexvar | homalt | 91.8287 | 87.2523 | 96.9117 | 42.9901 | 9247 | 1351 | 9320 | 297 | 279 | 93.9394 | |
| anovak-vg | SNP | * | map_l125_m2_e1 | * | 81.3800 | 87.2421 | 76.2560 | 76.1127 | 41180 | 6022 | 40707 | 12675 | 2820 | 22.2485 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 93.0896 | 87.2376 | 99.7831 | 59.6058 | 12885 | 1885 | 12884 | 28 | 19 | 67.8571 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.9768 | 87.2358 | 99.5265 | 30.0431 | 2064 | 302 | 2102 | 10 | 10 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.1830 | 87.2340 | 97.7273 | 64.2276 | 41 | 6 | 43 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 81.8991 | 87.2340 | 77.1791 | 62.6848 | 492 | 72 | 487 | 144 | 112 | 77.7778 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.1595 | 87.2340 | 97.6744 | 75.0000 | 41 | 6 | 42 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 93.1818 | 87.2340 | 100.0000 | 90.0243 | 41 | 6 | 41 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 0.0000 | 87.2340 | 0.0000 | 0.0000 | 41 | 6 | 0 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 40.8005 | 87.2340 | 26.6272 | 32.1285 | 41 | 6 | 45 | 124 | 115 | 92.7419 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 93.1818 | 87.2340 | 100.0000 | 90.9492 | 41 | 6 | 41 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | HG002compoundhet | het | 91.1593 | 87.2340 | 95.4545 | 94.5679 | 41 | 6 | 21 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002compoundhet | het | 89.2228 | 87.2340 | 91.3043 | 94.7005 | 41 | 6 | 21 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | het | 74.1746 | 87.2340 | 64.5161 | 91.9481 | 41 | 6 | 20 | 11 | 6 | 54.5455 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 79.3964 | 87.2325 | 72.8520 | 53.8546 | 2446 | 358 | 2442 | 910 | 909 | 99.8901 | |
| ciseli-custom | SNP | * | map_l100_m0_e0 | homalt | 87.9778 | 87.2289 | 88.7396 | 61.6447 | 10136 | 1484 | 10103 | 1282 | 1041 | 81.2012 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_siren | het | 91.9143 | 87.2227 | 97.1393 | 86.6717 | 3932 | 576 | 3939 | 116 | 14 | 12.0690 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 87.2192 | 0.0000 | 0.0000 | 1126 | 165 | 0 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.1692 | 87.2119 | 100.0000 | 32.0201 | 1589 | 233 | 1622 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.1677 | 87.2093 | 100.0000 | 76.4205 | 75 | 11 | 83 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.1677 | 87.2093 | 100.0000 | 76.7908 | 75 | 11 | 81 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I16_PLUS | map_siren | * | 91.4854 | 87.2093 | 96.2025 | 77.4929 | 75 | 11 | 76 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.1677 | 87.2093 | 100.0000 | 76.4205 | 75 | 11 | 83 | 0 | 0 | ||
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.0574 | 87.2068 | 99.7494 | 78.9889 | 409 | 60 | 398 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | * | map_l100_m1_e0 | homalt | 76.5861 | 87.2046 | 68.2728 | 79.5887 | 1070 | 157 | 1091 | 507 | 474 | 93.4911 | |
| gduggal-snapplat | SNP | tv | HG002compoundhet | * | 81.2573 | 87.2016 | 76.0717 | 63.0432 | 7781 | 1142 | 7808 | 2456 | 275 | 11.1971 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | hetalt | 93.1624 | 87.2000 | 100.0000 | 87.7076 | 109 | 16 | 111 | 0 | 0 | ||
| jlack-gatk | INDEL | * | map_l100_m2_e0 | hetalt | 92.7695 | 87.2000 | 99.0991 | 88.2788 | 109 | 16 | 110 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | map_l100_m2_e0 | hetalt | 93.1624 | 87.2000 | 100.0000 | 87.7076 | 109 | 16 | 111 | 0 | 0 | ||
| gduggal-snapvard | INDEL | * | map_l150_m0_e0 | homalt | 92.3286 | 87.1951 | 98.1043 | 88.9817 | 143 | 21 | 207 | 4 | 2 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.5450 | 87.1936 | 98.5962 | 31.1755 | 2063 | 303 | 2107 | 30 | 29 | 96.6667 | |
| astatham-gatk | SNP | * | map_l250_m1_e0 | * | 92.7803 | 87.1919 | 99.1341 | 90.2158 | 6297 | 925 | 6297 | 55 | 19 | 34.5455 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 92.8280 | 87.1851 | 99.2519 | 87.9706 | 796 | 117 | 796 | 6 | 4 | 66.6667 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 87.1835 | 0.0000 | 0.0000 | 551 | 81 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 87.1795 | 0.0000 | 0.0000 | 34 | 5 | 0 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | map_l250_m0_e0 | * | 82.9268 | 87.1795 | 79.0698 | 99.4172 | 68 | 10 | 68 | 18 | 1 | 5.5556 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 90.9054 | 87.1795 | 94.9640 | 88.1323 | 1054 | 155 | 1056 | 56 | 6 | 10.7143 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.8919 | 87.1795 | 97.1429 | 60.6742 | 34 | 5 | 34 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | map_l150_m1_e0 | het | 80.3240 | 87.1795 | 74.4681 | 92.3948 | 34 | 5 | 35 | 12 | 7 | 58.3333 | |
| anovak-vg | SNP | tv | tech_badpromoters | homalt | 93.1507 | 87.1795 | 100.0000 | 36.5385 | 34 | 5 | 33 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | tech_badpromoters | het | 91.9609 | 87.1795 | 97.2973 | 46.3768 | 34 | 5 | 36 | 1 | 1 | 100.0000 | |