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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
33201-33250 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | * | HG002compoundhet | * | 14.6648 | 14.4226 | 14.9152 | 58.8895 | 4321 | 25639 | 4329 | 24695 | 23984 | 97.1209 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 25.2252 | 14.4330 | 100.0000 | 37.5000 | 14 | 83 | 15 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 18.3861 | 14.4397 | 25.3012 | 64.2755 | 67 | 397 | 63 | 186 | 4 | 2.1505 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 19.4706 | 14.4444 | 29.8611 | 63.4518 | 39 | 231 | 43 | 101 | 70 | 69.3069 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 25.0000 | 14.4578 | 92.3077 | 18.7500 | 12 | 71 | 12 | 1 | 1 | 100.0000 | |
| anovak-vg | SNP | * | * | hetalt | 0.0000 | 14.4661 | 0.0000 | 0.0000 | 126 | 745 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | * | hetalt | 0.0000 | 14.4661 | 0.0000 | 0.0000 | 126 | 745 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 20.7177 | 14.5161 | 36.1702 | 74.1758 | 27 | 159 | 17 | 30 | 17 | 56.6667 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 23.7665 | 14.5247 | 65.3430 | 41.4376 | 191 | 1124 | 181 | 96 | 38 | 39.5833 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 21.3305 | 14.5749 | 39.7590 | 79.5062 | 36 | 211 | 33 | 50 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | * | HG002compoundhet | * | 14.6445 | 14.5761 | 14.7135 | 73.0382 | 4367 | 25593 | 4334 | 25122 | 24561 | 97.7669 | |
| anovak-vg | SNP | * | HG002compoundhet | hetalt | 0.0000 | 14.6172 | 0.0000 | 0.0000 | 126 | 736 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | HG002compoundhet | hetalt | 0.0000 | 14.6172 | 0.0000 | 0.0000 | 126 | 736 | 0 | 0 | 0 | ||
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 25.0124 | 14.6182 | 86.5625 | 67.4300 | 559 | 3265 | 554 | 86 | 66 | 76.7442 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 16.6415 | 14.6667 | 19.2308 | 69.7674 | 11 | 64 | 10 | 42 | 38 | 90.4762 | |
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | homalt | 25.5918 | 14.6735 | 100.0000 | 95.2449 | 600 | 3489 | 600 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | HG002complexvar | het | 24.3337 | 14.7368 | 69.7674 | 51.5038 | 98 | 567 | 90 | 39 | 9 | 23.0769 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 21.4797 | 14.7388 | 39.5833 | 70.4160 | 79 | 457 | 76 | 116 | 116 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 17.8914 | 14.8148 | 22.5806 | 56.6434 | 16 | 92 | 14 | 48 | 8 | 16.6667 | |
| gduggal-snapvard | INDEL | D16_PLUS | map_l125_m1_e0 | * | 22.8571 | 14.8148 | 50.0000 | 93.6508 | 4 | 23 | 4 | 4 | 1 | 25.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | map_l125_m2_e0 | * | 22.8571 | 14.8148 | 50.0000 | 94.2446 | 4 | 23 | 4 | 4 | 1 | 25.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 20.5128 | 14.8148 | 33.3333 | 91.0891 | 4 | 23 | 3 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 24.6154 | 14.8148 | 72.7273 | 60.7143 | 16 | 92 | 16 | 6 | 6 | 100.0000 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 14.8954 | 0.0000 | 0.0000 | 178 | 1017 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D16_PLUS | HG002compoundhet | * | 17.0370 | 14.9082 | 19.8751 | 36.5405 | 349 | 1992 | 350 | 1411 | 1404 | 99.5039 | |
| jpowers-varprowl | INDEL | D1_5 | HG002compoundhet | * | 18.0756 | 14.9571 | 22.8370 | 69.8480 | 1830 | 10405 | 1816 | 6136 | 5980 | 97.4576 | |
| ckim-isaac | INDEL | D6_15 | map_l150_m0_e0 | het | 25.0000 | 15.0000 | 75.0000 | 97.9695 | 3 | 17 | 3 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 25.8158 | 15.0294 | 91.4439 | 71.5156 | 332 | 1877 | 342 | 32 | 20 | 62.5000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 23.6905 | 15.0376 | 55.7971 | 50.3597 | 20 | 113 | 77 | 61 | 61 | 100.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 25.8065 | 15.0943 | 88.8889 | 83.3333 | 8 | 45 | 8 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l125_m1_e0 | * | 25.0000 | 15.0943 | 72.7273 | 94.2105 | 8 | 45 | 8 | 3 | 2 | 66.6667 | |
| ciseli-custom | INDEL | I6_15 | map_l125_m2_e0 | * | 25.0000 | 15.0943 | 72.7273 | 95.2586 | 8 | 45 | 8 | 3 | 2 | 66.6667 | |
| ciseli-custom | INDEL | I6_15 | map_l125_m2_e1 | * | 25.0000 | 15.0943 | 72.7273 | 95.2991 | 8 | 45 | 8 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 25.7312 | 15.1242 | 86.1538 | 28.5714 | 67 | 376 | 56 | 9 | 9 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m1_e0 | homalt | 25.0000 | 15.1515 | 71.4286 | 93.2692 | 5 | 28 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m2_e0 | homalt | 25.0000 | 15.1515 | 71.4286 | 93.7500 | 5 | 28 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m2_e1 | homalt | 25.0000 | 15.1515 | 71.4286 | 93.9130 | 5 | 28 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | * | map_l100_m0_e0 | hetalt | 24.6914 | 15.1515 | 66.6667 | 99.0491 | 5 | 28 | 4 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l100_m0_e0 | * | 24.3902 | 15.1515 | 62.5000 | 94.2446 | 5 | 28 | 5 | 3 | 2 | 66.6667 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 24.4399 | 15.1515 | 63.1579 | 53.6585 | 10 | 56 | 12 | 7 | 7 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | HG002compoundhet | * | 17.4062 | 15.1645 | 20.4258 | 36.2202 | 355 | 1986 | 355 | 1383 | 1372 | 99.2046 | |
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | homalt | 26.4068 | 15.2119 | 100.0000 | 94.8680 | 420 | 2341 | 420 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l250_m1_e0 | homalt | 26.5493 | 15.3065 | 100.0000 | 97.5301 | 377 | 2086 | 377 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 19.5758 | 15.3515 | 27.0073 | 33.7097 | 107 | 590 | 111 | 300 | 272 | 90.6667 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 22.6415 | 15.3846 | 42.8571 | 75.0000 | 2 | 11 | 3 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l100_m1_e0 | * | 21.6216 | 15.3846 | 36.3636 | 80.0000 | 4 | 22 | 4 | 7 | 6 | 85.7143 | |
| anovak-vg | INDEL | I16_PLUS | map_l100_m2_e0 | * | 21.0526 | 15.3846 | 33.3333 | 82.3529 | 4 | 22 | 4 | 8 | 6 | 75.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l100_m2_e1 | * | 21.0526 | 15.3846 | 33.3333 | 82.3529 | 4 | 22 | 4 | 8 | 6 | 75.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 25.8065 | 15.3846 | 80.0000 | 37.5000 | 2 | 11 | 4 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | I6_15 | tech_badpromoters | * | 25.0000 | 15.3846 | 66.6667 | 57.1429 | 2 | 11 | 2 | 1 | 1 | 100.0000 | |