PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38751-38800 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.6780 | 84.2520 | 98.1651 | 42.0213 | 107 | 20 | 107 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 88.4071 | 84.2391 | 93.0089 | 52.2708 | 5115 | 957 | 5122 | 385 | 278 | 72.2078 | |
| gduggal-snapplat | INDEL | D1_5 | segdup | * | 87.1437 | 84.2248 | 90.2721 | 96.4637 | 929 | 174 | 1095 | 118 | 18 | 15.2542 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 91.0987 | 84.2196 | 99.2016 | 58.5608 | 491 | 92 | 497 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 90.6524 | 84.2181 | 98.1513 | 37.9562 | 587 | 110 | 584 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | het | 91.1805 | 84.2105 | 99.4083 | 47.5155 | 560 | 105 | 504 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l100_m0_e0 | het | 88.7246 | 84.2105 | 93.7500 | 87.4016 | 16 | 3 | 15 | 1 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m0_e0 | het | 82.0513 | 84.2105 | 80.0000 | 97.7778 | 16 | 3 | 16 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 91.4286 | 84.2105 | 100.0000 | 62.7451 | 16 | 3 | 19 | 0 | 0 | ||
| qzeng-custom | INDEL | D16_PLUS | map_l100_m0_e0 | het | 35.7190 | 84.2105 | 22.6667 | 92.9112 | 16 | 3 | 17 | 58 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | segdup | homalt | 91.4286 | 84.2105 | 100.0000 | 82.0225 | 16 | 3 | 16 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | segdup | homalt | 91.4286 | 84.2105 | 100.0000 | 88.1944 | 16 | 3 | 17 | 0 | 0 | ||
| jlack-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | het | 77.2947 | 84.2105 | 71.4286 | 97.1429 | 16 | 3 | 15 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 88.8889 | 84.2105 | 94.1176 | 82.2917 | 16 | 3 | 16 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m0_e0 | het | 83.4019 | 84.2105 | 82.6087 | 94.8081 | 16 | 3 | 19 | 4 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 0.0000 | 84.2105 | 0.0000 | 0.0000 | 16 | 3 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m0_e0 | het | 72.7273 | 84.2105 | 64.0000 | 97.6460 | 16 | 3 | 16 | 9 | 2 | 22.2222 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 82.0513 | 84.2105 | 80.0000 | 94.5848 | 16 | 3 | 12 | 3 | 1 | 33.3333 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 82.0513 | 84.2105 | 80.0000 | 94.6043 | 16 | 3 | 12 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 90.9091 | 84.2105 | 98.7654 | 91.5361 | 80 | 15 | 80 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 88.8889 | 84.2105 | 94.1176 | 91.7476 | 16 | 3 | 16 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 88.8889 | 84.2105 | 94.1176 | 92.0188 | 16 | 3 | 16 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.6648 | 84.2067 | 75.5878 | 57.5613 | 9352 | 1754 | 9484 | 3063 | 1008 | 32.9089 | |
| anovak-vg | INDEL | * | map_l150_m2_e0 | homalt | 76.2649 | 84.1996 | 69.6970 | 88.0938 | 405 | 76 | 414 | 180 | 160 | 88.8889 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 89.1674 | 84.1986 | 94.7593 | 66.6240 | 2238 | 420 | 2224 | 123 | 104 | 84.5528 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 88.7892 | 84.1909 | 93.9189 | 55.0542 | 2258 | 424 | 973 | 63 | 62 | 98.4127 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e1 | * | 82.1438 | 84.1902 | 80.1944 | 89.9891 | 655 | 123 | 660 | 163 | 64 | 39.2638 | |
| astatham-gatk | SNP | * | map_l125_m2_e0 | * | 91.3143 | 84.1877 | 99.7590 | 76.2743 | 39335 | 7388 | 39329 | 95 | 43 | 45.2632 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 84.1837 | 0.0000 | 0.0000 | 660 | 124 | 0 | 0 | 0 | ||
| astatham-gatk | SNP | * | map_l125_m2_e1 | * | 91.3125 | 84.1829 | 99.7615 | 76.3148 | 39736 | 7466 | 39730 | 95 | 43 | 45.2632 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 83.2899 | 84.1808 | 82.4176 | 55.5375 | 149 | 28 | 225 | 48 | 45 | 93.7500 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 86.8556 | 84.1808 | 89.7059 | 59.6838 | 149 | 28 | 183 | 21 | 20 | 95.2381 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 77.9866 | 84.1808 | 72.6415 | 67.5841 | 149 | 28 | 154 | 58 | 58 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.3367 | 84.1772 | 99.8273 | 38.7302 | 532 | 100 | 578 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.4044 | 84.1695 | 100.0000 | 41.9118 | 755 | 142 | 790 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 89.2536 | 84.1610 | 95.0022 | 64.8333 | 2237 | 421 | 2205 | 116 | 101 | 87.0690 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 90.6233 | 84.1577 | 98.1651 | 57.4219 | 1089 | 205 | 107 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.3934 | 84.1509 | 100.0000 | 46.3584 | 446 | 84 | 464 | 0 | 0 | ||
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.4763 | 84.1506 | 91.0757 | 53.9857 | 5320 | 1002 | 9889 | 969 | 796 | 82.1465 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.4763 | 84.1506 | 91.0757 | 53.9857 | 5320 | 1002 | 9889 | 969 | 796 | 82.1465 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 86.2115 | 84.1466 | 88.3803 | 58.2216 | 13503 | 2544 | 13516 | 1777 | 1745 | 98.1992 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.1825 | 84.1463 | 94.8598 | 82.1963 | 207 | 39 | 203 | 11 | 9 | 81.8182 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | het | 81.9141 | 84.1429 | 79.8002 | 62.7770 | 3932 | 741 | 3994 | 1011 | 84 | 8.3086 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e0 | * | 82.1745 | 84.1415 | 80.2974 | 90.0210 | 642 | 121 | 648 | 159 | 63 | 39.6226 | |
| gduggal-snapplat | SNP | tv | map_l150_m0_e0 | * | 88.3530 | 84.1399 | 93.0103 | 89.4841 | 3512 | 662 | 3513 | 264 | 134 | 50.7576 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.7836 | 84.1298 | 98.5804 | 37.3201 | 2359 | 445 | 2361 | 34 | 27 | 79.4118 | |
| qzeng-custom | INDEL | D6_15 | map_l125_m2_e0 | * | 84.0880 | 84.1270 | 84.0491 | 91.3252 | 106 | 20 | 137 | 26 | 6 | 23.0769 | |
| gduggal-bwaplat | INDEL | D6_15 | * | homalt | 90.8801 | 84.1132 | 98.8312 | 57.2595 | 5321 | 1005 | 5327 | 63 | 57 | 90.4762 | |
| gduggal-bwaplat | INDEL | * | func_cds | het | 91.1392 | 84.1121 | 99.4475 | 61.8143 | 180 | 34 | 180 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | HG002compoundhet | het | 21.3553 | 84.1121 | 12.2302 | 37.5281 | 720 | 136 | 748 | 5368 | 5337 | 99.4225 | |