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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17951-18000 / 86044 show all | |||||||||||||||
| gduggal-snapvard | SNP | ti | map_l150_m2_e1 | homalt | 97.6162 | 95.6194 | 99.6983 | 73.2617 | 7356 | 337 | 7269 | 22 | 18 | 81.8182 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5504 | 99.4030 | 99.6982 | 59.0103 | 999 | 6 | 991 | 3 | 1 | 33.3333 | |
| jpowers-varprowl | SNP | * | * | homalt | 99.8292 | 99.9606 | 99.6981 | 20.3193 | 1179696 | 465 | 1179822 | 3573 | 2211 | 61.8808 | |
| bgallagher-sentieon | SNP | tv | map_l150_m0_e0 | homalt | 99.5475 | 99.3976 | 99.6979 | 74.9100 | 1320 | 8 | 1320 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6838 | 99.6701 | 99.6976 | 61.7359 | 10875 | 36 | 10878 | 33 | 21 | 63.6364 | |
| ltrigg-rtg2 | SNP | ti | map_siren | het | 99.2569 | 98.8202 | 99.6976 | 45.2238 | 61645 | 736 | 61646 | 187 | 11 | 5.8824 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5604 | 97.4488 | 99.6975 | 72.9214 | 8900 | 233 | 8900 | 27 | 5 | 18.5185 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5604 | 97.4488 | 99.6975 | 72.9214 | 8900 | 233 | 8900 | 27 | 5 | 18.5185 | |
| hfeng-pmm1 | SNP | tv | map_l100_m2_e1 | het | 99.4686 | 99.2408 | 99.6974 | 66.3712 | 15817 | 121 | 15813 | 48 | 12 | 25.0000 | |
| ltrigg-rtg1 | SNP | * | map_l125_m0_e0 | het | 97.9634 | 96.2887 | 99.6974 | 60.6999 | 12194 | 470 | 12192 | 37 | 6 | 16.2162 | |
| raldana-dualsentieon | INDEL | * | HG002complexvar | * | 98.9594 | 98.2323 | 99.6974 | 57.2556 | 75578 | 1360 | 75441 | 229 | 196 | 85.5895 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e1 | het | 96.6928 | 93.8640 | 99.6973 | 80.4597 | 4941 | 323 | 4941 | 15 | 4 | 26.6667 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4000 | 99.1045 | 99.6973 | 59.5840 | 996 | 9 | 988 | 3 | 1 | 33.3333 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.0884 | 96.5308 | 99.6971 | 74.3115 | 5732 | 206 | 5924 | 18 | 18 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8051 | 99.9133 | 99.6971 | 35.6178 | 4612 | 4 | 4608 | 14 | 2 | 14.2857 | |
| gduggal-bwavard | SNP | ti | map_l150_m0_e0 | homalt | 98.0657 | 96.4868 | 99.6971 | 76.4491 | 2664 | 97 | 2633 | 8 | 6 | 75.0000 | |
| gduggal-bwaplat | SNP | tv | func_cds | het | 99.3960 | 99.0967 | 99.6971 | 49.3090 | 2633 | 24 | 2633 | 8 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | * | hetalt | 95.4941 | 91.6313 | 99.6969 | 55.9167 | 23125 | 2112 | 23354 | 71 | 70 | 98.5915 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6716 | 99.6463 | 99.6968 | 50.6032 | 11833 | 42 | 11838 | 36 | 19 | 52.7778 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.1684 | 89.2210 | 99.6967 | 86.2237 | 985 | 119 | 986 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | * | het | 99.7512 | 99.8059 | 99.6966 | 58.6998 | 87404 | 170 | 87413 | 266 | 136 | 51.1278 | |
| gduggal-snapplat | SNP | tv | HG002complexvar | homalt | 98.5607 | 97.4503 | 99.6966 | 24.7080 | 92686 | 2425 | 92657 | 282 | 135 | 47.8723 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8480 | 100.0000 | 99.6965 | 80.1924 | 657 | 0 | 657 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8480 | 100.0000 | 99.6965 | 80.4160 | 657 | 0 | 657 | 2 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | homalt | 98.1315 | 96.6152 | 99.6963 | 88.8565 | 2626 | 92 | 2626 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | hetalt | 96.1260 | 92.8027 | 99.6962 | 58.0768 | 1947 | 151 | 1969 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7958 | 97.9116 | 99.6962 | 48.3747 | 3610 | 77 | 3610 | 11 | 9 | 81.8182 | |
| bgallagher-sentieon | SNP | * | func_cds | het | 99.8344 | 99.9731 | 99.6961 | 26.0085 | 11158 | 3 | 11155 | 34 | 0 | 0.0000 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4613 | 99.2277 | 99.6960 | 43.2493 | 6681 | 52 | 7543 | 23 | 17 | 73.9130 | |
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| hfeng-pmm1 | SNP | tv | map_l150_m1_e0 | homalt | 99.7086 | 99.7212 | 99.6960 | 71.8212 | 3935 | 11 | 3935 | 12 | 4 | 33.3333 | |
| hfeng-pmm2 | SNP | tv | map_l150_m1_e0 | homalt | 99.7086 | 99.7212 | 99.6960 | 71.9235 | 3935 | 11 | 3935 | 12 | 4 | 33.3333 | |
| gduggal-bwaplat | SNP | * | * | * | 98.8646 | 98.0471 | 99.6958 | 26.6546 | 2994965 | 59654 | 2995523 | 9139 | 1314 | 14.3779 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | het | 99.5408 | 99.3864 | 99.6957 | 45.1283 | 14091 | 87 | 14087 | 43 | 32 | 74.4186 | |
| hfeng-pmm3 | SNP | tv | map_l150_m1_e0 | homalt | 99.6705 | 99.6452 | 99.6957 | 71.7215 | 3932 | 14 | 3932 | 12 | 4 | 33.3333 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e1 | het | 99.5633 | 99.4315 | 99.6955 | 65.7255 | 30784 | 176 | 30777 | 94 | 9 | 9.5745 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | het | 99.2727 | 98.8535 | 99.6955 | 59.4318 | 2328 | 27 | 2292 | 7 | 6 | 85.7143 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e0 | het | 99.5618 | 99.4285 | 99.6954 | 65.7218 | 30447 | 175 | 30440 | 93 | 9 | 9.6774 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3936 | 99.0937 | 99.6953 | 60.8166 | 1640 | 15 | 1636 | 5 | 3 | 60.0000 | |
| jpowers-varprowl | SNP | * | map_l125_m0_e0 | homalt | 98.5610 | 97.4523 | 99.6952 | 74.0600 | 6541 | 171 | 6541 | 20 | 11 | 55.0000 | |
| hfeng-pmm3 | SNP | ti | map_l100_m1_e0 | het | 99.5602 | 99.4256 | 99.6952 | 64.3351 | 29770 | 172 | 29763 | 91 | 9 | 9.8901 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e0 | homalt | 97.6054 | 95.6014 | 99.6952 | 73.2059 | 7281 | 335 | 7195 | 22 | 18 | 81.8182 | |
| astatham-gatk | SNP | tv | map_l100_m2_e0 | het | 86.7029 | 76.7066 | 99.6951 | 76.6657 | 12102 | 3675 | 12098 | 37 | 10 | 27.0270 | |
| hfeng-pmm1 | SNP | ti | map_l125_m1_e0 | * | 99.4515 | 99.2091 | 99.6951 | 68.8149 | 29103 | 232 | 29099 | 89 | 25 | 28.0899 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 97.4130 | 95.2329 | 99.6951 | 36.9231 | 879 | 44 | 327 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | tv | map_l150_m1_e0 | homalt | 99.5559 | 99.4171 | 99.6950 | 66.7792 | 3923 | 23 | 3923 | 12 | 10 | 83.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | hetalt | 95.9205 | 92.4214 | 99.6950 | 58.3968 | 1939 | 159 | 1961 | 6 | 6 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.9147 | 88.7681 | 99.6948 | 86.0725 | 980 | 124 | 980 | 3 | 0 | 0.0000 | |
| egarrison-hhga | SNP | tv | map_l125_m0_e0 | * | 99.1050 | 98.5221 | 99.6948 | 73.4104 | 6533 | 98 | 6533 | 20 | 9 | 45.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.7620 | 95.9029 | 99.6947 | 70.9147 | 632 | 27 | 653 | 2 | 2 | 100.0000 | |