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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78301-78350 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.7578 | 95.2969 | 96.2233 | 58.1854 | 4093 | 202 | 4102 | 161 | 85 | 52.7950 | |
| bgallagher-sentieon | INDEL | I16_PLUS | HG002compoundhet | homalt | 6.5934 | 100.0000 | 3.4091 | 71.4286 | 3 | 0 | 3 | 85 | 85 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | het | 94.0512 | 98.4706 | 90.0115 | 86.3970 | 837 | 13 | 784 | 87 | 85 | 97.7011 | |
| ckim-dragen | INDEL | I16_PLUS | * | homalt | 97.0983 | 99.6797 | 94.6472 | 70.1850 | 1556 | 5 | 1556 | 88 | 85 | 96.5909 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | * | 93.5490 | 91.3672 | 95.8374 | 52.5778 | 1958 | 185 | 1957 | 85 | 85 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.6596 | 99.6701 | 97.6694 | 53.9900 | 3626 | 12 | 3604 | 86 | 85 | 98.8372 | |
| cchapple-custom | INDEL | I16_PLUS | * | * | 97.5144 | 96.5971 | 98.4493 | 68.4041 | 6160 | 217 | 6666 | 105 | 85 | 80.9524 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 20.1854 | 11.4278 | 86.3881 | 77.1411 | 437 | 3387 | 641 | 101 | 85 | 84.1584 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5921 | 96.2043 | 99.0206 | 42.9077 | 9099 | 359 | 9099 | 90 | 85 | 94.4444 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1601 | 96.8618 | 99.4937 | 40.9343 | 17686 | 573 | 17687 | 90 | 86 | 95.5556 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4896 | 97.3839 | 99.6207 | 39.3186 | 23898 | 642 | 23900 | 91 | 86 | 94.5055 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.3286 | 85.3061 | 87.3759 | 57.5045 | 627 | 108 | 616 | 89 | 86 | 96.6292 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| hfeng-pmm2 | INDEL | * | HG002complexvar | homalt | 99.7542 | 99.8483 | 99.6603 | 56.1296 | 26986 | 41 | 26994 | 92 | 86 | 93.4783 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1846 | 98.5457 | 99.8318 | 70.9620 | 63494 | 937 | 63506 | 107 | 86 | 80.3738 | |
| qzeng-custom | SNP | ti | HG002compoundhet | * | 98.4045 | 98.1577 | 98.6526 | 40.8633 | 17156 | 322 | 17719 | 242 | 86 | 35.5372 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | * | 67.6335 | 55.1825 | 87.3403 | 98.0910 | 756 | 614 | 752 | 109 | 86 | 78.8991 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 77.6408 | 64.0764 | 98.4903 | 40.8685 | 6712 | 3763 | 6263 | 96 | 86 | 89.5833 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 87.2924 | 84.6591 | 90.0947 | 59.0476 | 1043 | 189 | 1046 | 115 | 86 | 74.7826 | |
| mlin-fermikit | SNP | ti | segdup | * | 98.0976 | 97.5329 | 98.6689 | 85.0585 | 19055 | 482 | 19051 | 257 | 86 | 33.4630 | |
| mlin-fermikit | SNP | ti | segdup | homalt | 98.7142 | 98.7209 | 98.7075 | 85.2139 | 7409 | 96 | 7408 | 97 | 86 | 88.6598 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.9189 | 96.4670 | 97.3750 | 70.9358 | 3495 | 128 | 3487 | 94 | 86 | 91.4894 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m1_e0 | homalt | 72.3589 | 71.6332 | 73.0994 | 78.0347 | 250 | 99 | 250 | 92 | 86 | 93.4783 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e0 | homalt | 73.1572 | 72.2527 | 74.0845 | 79.6211 | 263 | 101 | 263 | 92 | 86 | 93.4783 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.7995 | 97.9339 | 99.6807 | 49.2515 | 31331 | 661 | 31528 | 101 | 86 | 85.1485 | |
| jpowers-varprowl | SNP | ti | map_l150_m0_e0 | * | 96.1494 | 95.2932 | 97.0211 | 84.0052 | 7491 | 370 | 7491 | 230 | 86 | 37.3913 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 58.9132 | 46.9890 | 78.9474 | 83.7848 | 1662 | 1875 | 1725 | 460 | 86 | 18.6957 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 64.8045 | 74.3750 | 57.4163 | 84.4610 | 119 | 41 | 120 | 89 | 86 | 96.6292 | |
| gduggal-bwafb | SNP | tv | HG002compoundhet | * | 97.8192 | 99.1259 | 96.5465 | 53.1590 | 8845 | 78 | 8890 | 318 | 86 | 27.0440 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.1889 | 99.5294 | 94.9560 | 60.6805 | 17767 | 84 | 17150 | 911 | 86 | 9.4402 | |
| gduggal-bwavard | SNP | tv | * | homalt | 99.4965 | 99.0327 | 99.9647 | 19.0358 | 373475 | 3648 | 371220 | 131 | 86 | 65.6489 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.3020 | 94.5490 | 92.0875 | 85.9655 | 3920 | 226 | 3829 | 329 | 86 | 26.1398 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 15.7742 | 14.0845 | 17.9245 | 45.0777 | 20 | 122 | 19 | 87 | 86 | 98.8506 | |
| gduggal-bwavard | INDEL | D6_15 | map_siren | * | 75.5000 | 73.4774 | 77.6371 | 87.1753 | 374 | 135 | 368 | 106 | 86 | 81.1321 | |
| gduggal-bwavard | INDEL | D6_15 | map_siren | het | 83.0604 | 98.2143 | 71.9577 | 88.5593 | 275 | 5 | 272 | 106 | 86 | 81.1321 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 70.1122 | 60.5452 | 83.2700 | 54.5769 | 422 | 275 | 438 | 88 | 86 | 97.7273 | |
| gduggal-bwaplat | SNP | * | map_l100_m2_e0 | * | 82.8217 | 70.9791 | 99.4075 | 82.3292 | 52499 | 21465 | 52511 | 313 | 86 | 27.4760 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.2515 | 91.2014 | 89.3212 | 56.4841 | 1078 | 104 | 1079 | 129 | 86 | 66.6667 | |
| egarrison-hhga | INDEL | D6_15 | * | homalt | 96.8232 | 97.8027 | 95.8630 | 51.8789 | 6187 | 139 | 6187 | 267 | 86 | 32.2097 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 87.1392 | 90.6725 | 83.8710 | 73.1533 | 836 | 86 | 884 | 170 | 86 | 50.5882 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.8458 | 93.1665 | 98.6838 | 27.9872 | 6626 | 486 | 6673 | 89 | 86 | 96.6292 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | * | 89.4294 | 82.0710 | 98.2373 | 79.5869 | 60703 | 13261 | 60692 | 1089 | 86 | 7.8972 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | * | 89.5170 | 82.2096 | 98.2503 | 79.5686 | 61441 | 13296 | 61430 | 1094 | 86 | 7.8611 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | * | 99.5269 | 99.3917 | 99.6625 | 58.3864 | 32516 | 199 | 32478 | 110 | 86 | 78.1818 | |
| ciseli-custom | SNP | * | map_l250_m0_e0 | homalt | 78.0848 | 77.2655 | 78.9216 | 92.3251 | 486 | 143 | 483 | 129 | 86 | 66.6667 | |
| ciseli-custom | SNP | ti | map_l100_m1_e0 | het | 83.0208 | 78.5018 | 88.0918 | 73.6464 | 23505 | 6437 | 23480 | 3174 | 86 | 2.7095 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | het | 83.2254 | 78.7865 | 88.1944 | 75.0570 | 24126 | 6496 | 24100 | 3226 | 86 | 2.6658 | |
| ciseli-custom | SNP | ti | map_l100_m2_e1 | het | 83.3126 | 78.8921 | 88.2578 | 75.0429 | 24425 | 6535 | 24398 | 3246 | 86 | 2.6494 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.8331 | 93.3976 | 58.3587 | 78.4954 | 8530 | 603 | 8633 | 6160 | 87 | 1.4123 | |