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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
34351-34400 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D6_15 | segdup | * | 96.3351 | 96.3351 | 96.3351 | 93.8821 | 184 | 7 | 184 | 7 | 4 | 57.1429 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.3680 | 92.4804 | 96.3342 | 31.9134 | 16886 | 1373 | 16845 | 641 | 574 | 89.5476 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | * | homalt | 94.2470 | 92.2486 | 96.3340 | 45.0988 | 1440 | 121 | 1419 | 54 | 53 | 98.1481 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 71.8529 | 57.2932 | 96.3338 | 35.0041 | 762 | 568 | 762 | 29 | 27 | 93.1034 | |
| ckim-dragen | SNP | * | map_l150_m2_e1 | het | 97.5066 | 98.7084 | 96.3337 | 81.8435 | 20100 | 263 | 20101 | 765 | 71 | 9.2811 | |
| ckim-dragen | SNP | ti | map_l125_m0_e0 | het | 97.4340 | 98.5598 | 96.3335 | 79.4732 | 8144 | 119 | 8145 | 310 | 27 | 8.7097 | |
| eyeh-varpipe | INDEL | * | map_l150_m0_e0 | homalt | 97.2434 | 98.1707 | 96.3333 | 91.9420 | 161 | 3 | 289 | 11 | 11 | 100.0000 | |
| ckim-dragen | INDEL | * | map_l250_m1_e0 | homalt | 96.3303 | 96.3303 | 96.3303 | 94.4557 | 105 | 4 | 105 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.4198 | 78.3582 | 96.3303 | 63.2997 | 420 | 116 | 420 | 16 | 14 | 87.5000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l250_m1_e0 | het | 95.4545 | 94.5946 | 96.3303 | 94.9373 | 105 | 6 | 105 | 4 | 2 | 50.0000 | |
| ckim-dragen | INDEL | * | map_l125_m2_e0 | * | 96.6158 | 96.9035 | 96.3299 | 89.2603 | 2128 | 68 | 2126 | 81 | 13 | 16.0494 | |
| qzeng-custom | INDEL | * | map_l125_m2_e1 | homalt | 83.8858 | 74.2894 | 96.3291 | 86.5211 | 575 | 199 | 761 | 29 | 11 | 37.9310 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8698 | 97.4170 | 96.3288 | 83.1947 | 1320 | 35 | 1207 | 46 | 34 | 73.9130 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | het | 95.6019 | 94.8864 | 96.3283 | 93.0623 | 1336 | 72 | 1338 | 51 | 5 | 9.8039 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.7289 | 93.1818 | 96.3283 | 76.7629 | 902 | 66 | 892 | 34 | 8 | 23.5294 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.9160 | 99.5572 | 96.3281 | 83.1889 | 1349 | 6 | 1233 | 47 | 30 | 63.8298 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | * | 86.8238 | 79.0267 | 96.3280 | 91.0593 | 682 | 181 | 787 | 30 | 23 | 76.6667 | |
| gduggal-snapplat | SNP | ti | map_l125_m2_e1 | * | 94.3667 | 92.4859 | 96.3257 | 81.1411 | 28272 | 2297 | 28287 | 1079 | 590 | 54.6803 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.4803 | 98.6631 | 96.3255 | 58.8553 | 369 | 5 | 367 | 14 | 8 | 57.1429 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m0_e0 | homalt | 97.1860 | 98.0620 | 96.3255 | 87.0584 | 253 | 5 | 367 | 14 | 10 | 71.4286 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e0 | het | 91.4492 | 87.0444 | 96.3236 | 84.5266 | 13733 | 2044 | 13729 | 524 | 14 | 2.6718 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.0385 | 86.3032 | 96.3235 | 58.6123 | 649 | 103 | 655 | 25 | 25 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | * | 65.8291 | 50.0000 | 96.3235 | 84.3858 | 132 | 132 | 131 | 5 | 4 | 80.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 83.6519 | 73.9268 | 96.3233 | 56.4236 | 6992 | 2466 | 6995 | 267 | 204 | 76.4045 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.3268 | 98.3529 | 96.3218 | 51.1785 | 836 | 14 | 838 | 32 | 19 | 59.3750 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m0_e0 | * | 97.7917 | 99.3080 | 96.3211 | 91.7060 | 287 | 2 | 288 | 11 | 1 | 9.0909 | |
| jmaeng-gatk | INDEL | * | func_cds | * | 97.9088 | 99.5506 | 96.3203 | 53.9841 | 443 | 2 | 445 | 17 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.8883 | 91.5760 | 96.3203 | 46.9726 | 29297 | 2695 | 34055 | 1301 | 1239 | 95.2344 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | * | 96.2111 | 96.1025 | 96.3199 | 76.8067 | 29416 | 1193 | 29419 | 1124 | 527 | 46.8861 | |
| cchapple-custom | INDEL | I16_PLUS | * | homalt | 98.0326 | 99.8078 | 96.3194 | 65.1446 | 1558 | 3 | 1544 | 59 | 57 | 96.6102 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | het | 95.3423 | 94.3860 | 96.3183 | 91.2356 | 807 | 48 | 811 | 31 | 4 | 12.9032 | |
| mlin-fermikit | INDEL | * | * | * | 95.5997 | 94.8918 | 96.3183 | 54.9677 | 326942 | 17600 | 326572 | 12483 | 12097 | 96.9078 | |
| astatham-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 94.7783 | 93.2873 | 96.3178 | 48.2447 | 945 | 68 | 994 | 38 | 37 | 97.3684 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6596 | 99.0406 | 96.3166 | 82.8425 | 1342 | 13 | 1229 | 47 | 42 | 89.3617 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.6125 | 96.9110 | 96.3159 | 71.1607 | 3451 | 110 | 3451 | 132 | 77 | 58.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.4427 | 96.5699 | 96.3158 | 59.3148 | 366 | 13 | 366 | 14 | 14 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.7368 | 93.2088 | 96.3158 | 71.7892 | 1098 | 80 | 1098 | 42 | 35 | 83.3333 | |
| ckim-vqsr | INDEL | D6_15 | segdup | * | 96.0630 | 95.8115 | 96.3158 | 95.0955 | 183 | 8 | 183 | 7 | 4 | 57.1429 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.9766 | 99.6958 | 96.3156 | 68.1284 | 2950 | 9 | 2954 | 113 | 5 | 4.4248 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.1226 | 86.4620 | 96.3144 | 38.7578 | 4956 | 776 | 18319 | 701 | 658 | 93.8659 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 94.7256 | 93.1885 | 96.3143 | 48.2949 | 944 | 69 | 993 | 38 | 37 | 97.3684 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.9027 | 95.4955 | 96.3134 | 65.1685 | 212 | 10 | 209 | 8 | 5 | 62.5000 | |
| ckim-dragen | SNP | ti | map_l150_m2_e0 | het | 97.5203 | 98.7579 | 96.3134 | 81.5763 | 12721 | 160 | 12723 | 487 | 52 | 10.6776 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.8708 | 82.4960 | 96.3134 | 28.0265 | 5632 | 1195 | 1672 | 64 | 39 | 60.9375 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.1217 | 100.0000 | 96.3127 | 73.4013 | 653 | 0 | 653 | 25 | 24 | 96.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l150_m1_e0 | het | 96.9072 | 97.5104 | 96.3115 | 87.4421 | 470 | 12 | 470 | 18 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.3775 | 98.4684 | 96.3105 | 71.9263 | 1993 | 31 | 2010 | 77 | 2 | 2.5974 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.7595 | 95.2166 | 96.3087 | 53.9807 | 36089 | 1813 | 35901 | 1376 | 1269 | 92.2238 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.8086 | 95.3161 | 96.3062 | 36.3267 | 8608 | 423 | 8604 | 330 | 327 | 99.0909 | |
| eyeh-varpipe | SNP | tv | map_l250_m0_e0 | * | 97.7391 | 99.2157 | 96.3057 | 94.5189 | 759 | 6 | 756 | 29 | 3 | 10.3448 | |