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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17601-17650 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | map_l250_m2_e0 | * | 92.8085 | 87.1006 | 99.3169 | 90.7841 | 4362 | 646 | 4362 | 30 | 12 | 40.0000 | |
| astatham-gatk | SNP | ti | map_l250_m2_e1 | * | 92.8549 | 87.1749 | 99.3266 | 90.8364 | 4425 | 651 | 4425 | 30 | 12 | 40.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 74.7337 | 62.6214 | 92.6554 | 54.8469 | 129 | 77 | 164 | 13 | 12 | 92.3077 | |
| asubramanian-gatk | SNP | * | map_l100_m1_e0 | * | 60.2018 | 43.0908 | 99.8527 | 84.6729 | 31199 | 41204 | 31193 | 46 | 12 | 26.0870 | |
| asubramanian-gatk | SNP | * | map_l100_m1_e0 | het | 63.0315 | 46.0636 | 99.7898 | 86.5707 | 20894 | 24465 | 20888 | 44 | 12 | 27.2727 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e0 | * | 62.4314 | 45.4117 | 99.8563 | 84.1830 | 22234 | 26727 | 22230 | 32 | 12 | 37.5000 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e0 | het | 65.0317 | 48.2333 | 99.7838 | 86.0511 | 14770 | 15852 | 14766 | 32 | 12 | 37.5000 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e1 | * | 62.6607 | 45.6542 | 99.8585 | 84.1129 | 22592 | 26893 | 22588 | 32 | 12 | 37.5000 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e1 | het | 65.2727 | 48.4981 | 99.7873 | 85.9875 | 15015 | 15945 | 15011 | 32 | 12 | 37.5000 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | homalt | 84.5342 | 73.7055 | 99.0926 | 73.0694 | 1637 | 584 | 1638 | 15 | 12 | 80.0000 | |
| astatham-gatk | INDEL | * | map_l100_m2_e0 | het | 95.1270 | 93.0212 | 97.3303 | 87.5556 | 2146 | 161 | 2151 | 59 | 12 | 20.3390 | |
| astatham-gatk | INDEL | * | map_l100_m2_e1 | het | 95.0891 | 92.9151 | 97.3672 | 87.6413 | 2177 | 166 | 2182 | 59 | 12 | 20.3390 | |
| astatham-gatk | INDEL | * | map_siren | homalt | 99.4364 | 99.5480 | 99.3251 | 81.5279 | 2643 | 12 | 2649 | 18 | 12 | 66.6667 | |
| astatham-gatk | INDEL | D1_5 | HG002complexvar | het | 99.6863 | 99.4751 | 99.8985 | 56.1634 | 20656 | 109 | 20662 | 21 | 12 | 57.1429 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8303 | 99.7319 | 99.9289 | 55.1102 | 25291 | 68 | 25294 | 18 | 12 | 66.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.2021 | 97.5649 | 98.8477 | 61.4163 | 1202 | 30 | 1201 | 14 | 12 | 85.7143 | |
| astatham-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4894 | 100.0000 | 98.9839 | 62.9548 | 1169 | 0 | 1169 | 12 | 12 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.8373 | 92.3541 | 97.4576 | 76.1616 | 459 | 38 | 460 | 12 | 12 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8473 | 94.0320 | 97.7341 | 82.3702 | 646 | 41 | 647 | 15 | 12 | 80.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.3320 | 93.5417 | 97.1922 | 82.4555 | 449 | 31 | 450 | 13 | 12 | 92.3077 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3928 | 99.9061 | 98.8848 | 68.4550 | 1064 | 1 | 1064 | 12 | 12 | 100.0000 | |
| astatham-gatk | SNP | * | HG002compoundhet | homalt | 99.8748 | 99.8702 | 99.8794 | 34.8528 | 10768 | 14 | 10763 | 13 | 12 | 92.3077 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.1035 | 98.9086 | 99.2991 | 66.9100 | 4803 | 53 | 4817 | 34 | 12 | 35.2941 | |
| asubramanian-gatk | SNP | tv | map_siren | * | 72.2865 | 56.6449 | 99.8618 | 75.5276 | 26017 | 19913 | 26011 | 36 | 12 | 33.3333 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.6115 | 86.6324 | 99.4771 | 37.4276 | 2359 | 364 | 2473 | 13 | 12 | 92.3077 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002complexvar | het | 98.0634 | 98.6450 | 97.4886 | 68.5684 | 1092 | 15 | 854 | 22 | 12 | 54.5455 | |
| bgallagher-sentieon | INDEL | D1_5 | HG002complexvar | het | 99.8096 | 99.7111 | 99.9084 | 56.0707 | 20705 | 60 | 20713 | 19 | 12 | 63.1579 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7675 | 99.7915 | 99.7435 | 70.0911 | 6223 | 13 | 6223 | 16 | 12 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l150_m1_e0 | homalt | 99.6712 | 99.4855 | 99.8575 | 68.3134 | 11215 | 58 | 11215 | 16 | 12 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e0 | homalt | 99.6746 | 99.4871 | 99.8627 | 70.7014 | 11639 | 60 | 11639 | 16 | 12 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | homalt | 99.6781 | 99.4927 | 99.8642 | 70.7146 | 11767 | 60 | 11767 | 16 | 12 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l250_m0_e0 | * | 97.7220 | 98.4543 | 97.0005 | 93.1217 | 2102 | 33 | 2102 | 65 | 12 | 18.4615 | |
| bgallagher-sentieon | SNP | * | segdup | * | 99.5028 | 99.8432 | 99.1647 | 90.1877 | 28023 | 44 | 28017 | 236 | 12 | 5.0848 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0767 | 99.4790 | 98.6777 | 68.4621 | 19477 | 102 | 19477 | 261 | 12 | 4.5977 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0767 | 99.4790 | 98.6777 | 68.4621 | 19477 | 102 | 19477 | 261 | 12 | 4.5977 | |
| bgallagher-sentieon | SNP | ti | map_l100_m1_e0 | homalt | 99.7937 | 99.6659 | 99.9218 | 56.9365 | 17900 | 60 | 17900 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | SNP | ti | map_l100_m2_e0 | homalt | 99.7949 | 99.6668 | 99.9233 | 59.4718 | 18248 | 61 | 18248 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | SNP | ti | map_l100_m2_e1 | homalt | 99.7943 | 99.6648 | 99.9241 | 59.4504 | 18432 | 62 | 18432 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | SNP | tv | map_l250_m1_e0 | * | 98.0805 | 98.4511 | 97.7128 | 88.7082 | 2606 | 41 | 2606 | 61 | 12 | 19.6721 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.4660 | 99.3376 | 99.5947 | 73.4410 | 3599 | 24 | 3686 | 15 | 12 | 80.0000 | |
| anovak-vg | INDEL | * | map_l250_m0_e0 | het | 64.3289 | 71.6981 | 58.3333 | 98.2533 | 38 | 15 | 42 | 30 | 12 | 40.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 92.6984 | 90.4665 | 95.0431 | 49.8920 | 446 | 47 | 441 | 23 | 12 | 52.1739 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.3314 | 91.1111 | 93.5849 | 51.5539 | 246 | 24 | 248 | 17 | 12 | 70.5882 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 44.0640 | 31.3725 | 74.0000 | 55.3571 | 32 | 70 | 37 | 13 | 12 | 92.3077 | |
| anovak-vg | INDEL | D1_5 | map_l125_m1_e0 | homalt | 87.4215 | 80.5158 | 95.6229 | 85.7759 | 281 | 68 | 284 | 13 | 12 | 92.3077 | |
| anovak-vg | INDEL | D6_15 | map_l100_m0_e0 | * | 75.4516 | 68.9320 | 83.3333 | 89.1892 | 71 | 32 | 70 | 14 | 12 | 85.7143 | |
| anovak-vg | INDEL | C1_5 | HG002compoundhet | het | 0.0000 | 0.0000 | 13.6364 | 74.7449 | 0 | 0 | 27 | 171 | 11 | 6.4328 | |
| anovak-vg | INDEL | D1_5 | map_l100_m0_e0 | homalt | 86.0971 | 79.0698 | 94.4954 | 84.8401 | 204 | 54 | 206 | 12 | 11 | 91.6667 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 52.0833 | 43.8596 | 64.1026 | 99.3572 | 25 | 32 | 25 | 14 | 11 | 78.5714 | |
| anovak-vg | INDEL | D6_15 | map_l125_m1_e0 | het | 77.8285 | 81.2500 | 74.6835 | 89.5641 | 52 | 12 | 59 | 20 | 11 | 55.0000 | |