PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16151-16200 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7390 | 98.7601 | 98.7179 | 73.4197 | 1593 | 20 | 1540 | 20 | 15 | 75.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8693 | 98.6987 | 99.0405 | 76.6032 | 2427 | 32 | 2374 | 23 | 15 | 65.2174 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8101 | 96.4286 | 97.1947 | 67.9535 | 594 | 22 | 589 | 17 | 15 | 88.2353 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.3593 | 92.2917 | 96.5217 | 82.2462 | 443 | 37 | 444 | 16 | 15 | 93.7500 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8489 | 98.6987 | 98.9996 | 76.4157 | 2427 | 32 | 2375 | 24 | 15 | 62.5000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7733 | 90.0718 | 97.7922 | 67.5516 | 753 | 83 | 753 | 17 | 15 | 88.2353 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7729 | 99.7421 | 99.8038 | 67.8356 | 9667 | 25 | 9667 | 19 | 15 | 78.9474 | |
| bgallagher-sentieon | SNP | * | map_l125_m1_e0 | homalt | 99.7275 | 99.5741 | 99.8813 | 63.4132 | 16833 | 72 | 16833 | 20 | 15 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | homalt | 99.7291 | 99.5741 | 99.8845 | 66.0253 | 17301 | 74 | 17301 | 20 | 15 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | homalt | 99.7315 | 99.5779 | 99.8856 | 66.0476 | 17458 | 74 | 17458 | 20 | 15 | 75.0000 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | het | 98.4386 | 98.9798 | 97.9033 | 83.1082 | 5045 | 52 | 5043 | 108 | 15 | 13.8889 | |
| bgallagher-sentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2725 | 99.8634 | 98.6886 | 65.8031 | 17544 | 24 | 17534 | 233 | 15 | 6.4378 | |
| bgallagher-sentieon | SNP | tv | map_l125_m0_e0 | het | 98.2208 | 99.1138 | 97.3437 | 79.3814 | 4362 | 39 | 4361 | 119 | 15 | 12.6050 | |
| anovak-vg | INDEL | C1_5 | HG002complexvar | het | 55.6456 | 71.4286 | 45.5752 | 82.8658 | 5 | 2 | 103 | 123 | 15 | 12.1951 | |
| anovak-vg | INDEL | C1_5 | HG002compoundhet | * | 24.7863 | 100.0000 | 14.1463 | 75.0305 | 1 | 0 | 29 | 176 | 15 | 8.5227 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 93.7340 | 94.7522 | 92.7374 | 52.4568 | 325 | 18 | 332 | 26 | 15 | 57.6923 | |
| anovak-vg | INDEL | D6_15 | map_l125_m1_e0 | * | 75.8631 | 73.5043 | 78.3784 | 88.8554 | 86 | 31 | 87 | 24 | 15 | 62.5000 | |
| anovak-vg | INDEL | D6_15 | map_l125_m2_e0 | * | 76.3127 | 73.8095 | 78.9916 | 88.9713 | 93 | 33 | 94 | 25 | 15 | 60.0000 | |
| anovak-vg | INDEL | D6_15 | map_l125_m2_e1 | * | 76.3524 | 73.4375 | 79.5082 | 88.8584 | 94 | 34 | 97 | 25 | 15 | 60.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 22.7920 | 22.7273 | 22.8571 | 61.5385 | 5 | 17 | 8 | 27 | 15 | 55.5556 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e0 | het | 49.5663 | 40.2414 | 64.5161 | 91.8362 | 200 | 297 | 220 | 121 | 15 | 12.3967 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | het | 49.1777 | 39.7638 | 64.4315 | 91.9559 | 202 | 306 | 221 | 122 | 15 | 12.2951 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6861 | 95.4198 | 95.9538 | 64.2562 | 500 | 24 | 498 | 21 | 15 | 71.4286 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8087 | 99.7134 | 99.9043 | 58.1701 | 28179 | 81 | 28181 | 27 | 15 | 55.5556 | |
| astatham-gatk | SNP | ti | map_l150_m0_e0 | * | 93.2170 | 87.6733 | 99.5090 | 82.5398 | 6892 | 969 | 6890 | 34 | 15 | 44.1176 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.5442 | 98.3435 | 98.7456 | 63.1402 | 10924 | 184 | 11336 | 144 | 15 | 10.4167 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.9774 | 95.2756 | 87.0504 | 53.0405 | 121 | 6 | 121 | 18 | 15 | 83.3333 | |
| asubramanian-gatk | INDEL | D1_5 | HG002complexvar | het | 99.2391 | 98.6082 | 99.8781 | 56.4759 | 20476 | 289 | 20484 | 25 | 15 | 60.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.8792 | 96.0199 | 97.7540 | 64.3266 | 579 | 24 | 914 | 21 | 15 | 71.4286 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | homalt | 98.1740 | 96.4210 | 99.9920 | 18.6413 | 186539 | 6924 | 186529 | 15 | 15 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002complexvar | * | 96.3580 | 94.4005 | 98.3985 | 65.2184 | 1551 | 92 | 1536 | 25 | 15 | 60.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4965 | 92.9078 | 98.2335 | 72.2151 | 1310 | 100 | 1279 | 23 | 15 | 65.2174 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.1918 | 84.5070 | 80.0000 | 56.3953 | 60 | 11 | 60 | 15 | 15 | 100.0000 | |
| hfeng-pmm2 | SNP | * | HG002complexvar | het | 99.8103 | 99.6430 | 99.9782 | 18.0375 | 463835 | 1662 | 463706 | 101 | 15 | 14.8515 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.5879 | 97.0976 | 96.0836 | 58.4599 | 368 | 11 | 368 | 15 | 15 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 84.5638 | 88.7324 | 80.7692 | 54.9133 | 63 | 8 | 63 | 15 | 15 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.8593 | 86.7265 | 97.6378 | 63.9497 | 869 | 133 | 868 | 21 | 15 | 71.4286 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6837 | 98.6418 | 98.7256 | 72.6343 | 1162 | 16 | 1162 | 15 | 15 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | map_siren | * | 99.7604 | 99.7104 | 99.8104 | 56.7354 | 45797 | 133 | 45789 | 87 | 15 | 17.2414 | |
| jlack-gatk | INDEL | * | segdup | * | 95.2733 | 98.4742 | 92.2739 | 95.5954 | 2517 | 39 | 2520 | 211 | 15 | 7.1090 | |
| jlack-gatk | INDEL | D16_PLUS | * | hetalt | 94.8361 | 90.8432 | 99.1960 | 37.9289 | 1756 | 177 | 1974 | 16 | 15 | 93.7500 | |
| jlack-gatk | INDEL | D16_PLUS | * | homalt | 98.8194 | 98.9362 | 98.7028 | 69.0115 | 1674 | 18 | 1674 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 94.8587 | 90.8856 | 99.1952 | 37.8556 | 1755 | 176 | 1972 | 16 | 15 | 93.7500 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 94.8587 | 90.8856 | 99.1952 | 37.8556 | 1755 | 176 | 1972 | 16 | 15 | 93.7500 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 93.0769 | 99.1803 | 87.6812 | 86.5889 | 121 | 1 | 121 | 17 | 15 | 88.2353 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8242 | 99.0991 | 98.5507 | 72.0171 | 1320 | 12 | 1292 | 19 | 15 | 78.9474 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.1905 | 100.0000 | 61.5385 | 74.6753 | 24 | 0 | 24 | 15 | 15 | 100.0000 | |
| jlack-gatk | SNP | * | HG002compoundhet | homalt | 99.8516 | 99.8516 | 99.8515 | 34.5857 | 10766 | 16 | 10761 | 16 | 15 | 93.7500 | |