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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25051-25100 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.1161 | 96.5935 | 99.6875 | 59.6596 | 1276 | 45 | 1276 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.7029 | 96.5935 | 98.8381 | 61.3357 | 1276 | 45 | 1276 | 15 | 13 | 86.6667 | |
| rpoplin-dv42 | INDEL | * | map_l125_m0_e0 | het | 97.2591 | 96.5928 | 97.9346 | 88.6168 | 567 | 20 | 569 | 12 | 3 | 25.0000 | |
| eyeh-varpipe | INDEL | * | map_l125_m0_e0 | het | 96.8078 | 96.5928 | 97.0238 | 87.4308 | 567 | 20 | 815 | 25 | 12 | 48.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m0_e0 | het | 95.3743 | 96.5928 | 94.1860 | 94.0596 | 567 | 20 | 567 | 35 | 1 | 2.8571 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8147 | 96.5909 | 97.0395 | 67.8647 | 595 | 21 | 590 | 18 | 16 | 88.8889 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m0_e0 | * | 97.1429 | 96.5909 | 97.7011 | 92.2529 | 170 | 6 | 170 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m0_e0 | * | 97.7044 | 96.5909 | 98.8439 | 91.2714 | 170 | 6 | 171 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | tv | map_l150_m1_e0 | * | 91.4337 | 96.5909 | 86.7993 | 81.5080 | 10540 | 372 | 10514 | 1599 | 100 | 6.2539 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6205 | 96.5909 | 98.6722 | 61.1039 | 1190 | 42 | 1189 | 16 | 15 | 93.7500 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e1 | het | 96.7380 | 96.5903 | 96.8862 | 90.0589 | 1898 | 67 | 1898 | 61 | 11 | 18.0328 | |
| jpowers-varprowl | SNP | * | map_l250_m1_e0 | homalt | 98.0829 | 96.5895 | 99.6231 | 89.3663 | 2379 | 84 | 2379 | 9 | 5 | 55.5556 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.1231 | 96.5890 | 97.6631 | 54.5313 | 24494 | 865 | 24490 | 586 | 552 | 94.1980 | |
| ckim-isaac | SNP | ti | segdup | homalt | 98.2649 | 96.5889 | 100.0000 | 84.6188 | 7249 | 256 | 7249 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | segdup | homalt | 98.2382 | 96.5889 | 99.9449 | 87.7431 | 7249 | 256 | 7249 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.7010 | 96.5880 | 98.8399 | 43.3164 | 17636 | 623 | 17637 | 207 | 204 | 98.5507 | |
| raldana-dualsentieon | SNP | tv | map_l250_m1_e0 | het | 97.2943 | 96.5865 | 98.0125 | 88.5090 | 1726 | 61 | 1726 | 35 | 1 | 2.8571 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | * | 97.6527 | 96.5862 | 98.7430 | 52.4974 | 5121 | 181 | 4949 | 63 | 48 | 76.1905 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | het | 96.9264 | 96.5856 | 97.2696 | 68.4720 | 1669 | 59 | 1710 | 48 | 21 | 43.7500 | |
| cchapple-custom | INDEL | * | map_l100_m2_e1 | het | 95.2316 | 96.5856 | 93.9150 | 85.7416 | 2263 | 80 | 2454 | 159 | 41 | 25.7862 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.2389 | 96.5856 | 93.9292 | 78.7201 | 1669 | 59 | 1671 | 108 | 103 | 95.3704 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2056 | 96.5856 | 93.8645 | 49.5961 | 2065 | 73 | 2050 | 134 | 7 | 5.2239 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e0 | homalt | 97.9437 | 96.5848 | 99.3414 | 90.7971 | 905 | 32 | 905 | 6 | 2 | 33.3333 | |
| cchapple-custom | INDEL | * | map_l125_m2_e0 | * | 95.8417 | 96.5847 | 95.1101 | 87.3742 | 2121 | 75 | 2159 | 111 | 23 | 20.7207 | |
| cchapple-custom | INDEL | * | map_l125_m2_e1 | * | 95.8508 | 96.5843 | 95.1283 | 87.4762 | 2149 | 76 | 2187 | 112 | 24 | 21.4286 | |
| hfeng-pmm2 | SNP | ti | HG002compoundhet | * | 98.2110 | 96.5843 | 99.8935 | 34.1246 | 16881 | 597 | 16883 | 18 | 7 | 38.8889 | |
| asubramanian-gatk | SNP | * | segdup | homalt | 98.2111 | 96.5838 | 99.8941 | 88.4606 | 10376 | 367 | 10376 | 11 | 10 | 90.9091 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002compoundhet | hetalt | 98.0424 | 96.5838 | 99.5458 | 62.4013 | 9867 | 349 | 9863 | 45 | 45 | 100.0000 | |
| asubramanian-gatk | SNP | * | HG002complexvar | * | 98.2310 | 96.5837 | 99.9354 | 19.5730 | 728609 | 25772 | 728466 | 471 | 54 | 11.4650 | |
| cchapple-custom | INDEL | * | map_l125_m1_e0 | * | 95.7860 | 96.5828 | 95.0023 | 86.4180 | 2035 | 72 | 2072 | 109 | 23 | 21.1009 | |
| astatham-gatk | INDEL | D6_15 | map_l125_m1_e0 | * | 97.4138 | 96.5812 | 98.2609 | 91.2080 | 113 | 4 | 113 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l125_m1_e0 | * | 97.4138 | 96.5812 | 98.2609 | 91.0991 | 113 | 4 | 113 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | map_l125_m1_e0 | * | 98.2609 | 96.5812 | 100.0000 | 88.8008 | 113 | 4 | 113 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | map_l125_m1_e0 | * | 96.9957 | 96.5812 | 97.4138 | 92.7318 | 113 | 4 | 113 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | D6_15 | map_l125_m1_e0 | * | 96.1702 | 96.5812 | 95.7627 | 92.6980 | 113 | 4 | 113 | 5 | 1 | 20.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | * | 92.9666 | 96.5808 | 89.6132 | 94.6918 | 2062 | 73 | 2062 | 239 | 29 | 12.1339 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.9346 | 96.5800 | 87.7156 | 44.0577 | 4942 | 175 | 4934 | 691 | 677 | 97.9740 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.8266 | 96.5799 | 82.2256 | 51.6201 | 15221 | 539 | 16108 | 3482 | 3306 | 94.9454 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.2527 | 96.5796 | 99.9848 | 34.0696 | 6579 | 233 | 6596 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | het | 97.8610 | 96.5795 | 99.1770 | 86.8328 | 480 | 17 | 482 | 4 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0024 | 96.5790 | 99.4683 | 68.2096 | 15527 | 550 | 15528 | 83 | 69 | 83.1325 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0024 | 96.5790 | 99.4683 | 68.2096 | 15527 | 550 | 15528 | 83 | 69 | 83.1325 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 58.7698 | 96.5789 | 42.2354 | 60.5712 | 5646 | 200 | 5638 | 7711 | 7534 | 97.7046 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 58.7698 | 96.5789 | 42.2354 | 60.5712 | 5646 | 200 | 5638 | 7711 | 7534 | 97.7046 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e0 | het | 96.7930 | 96.5784 | 97.0085 | 88.1973 | 875 | 31 | 1135 | 35 | 18 | 51.4286 | |
| cchapple-custom | SNP | ti | map_l250_m1_e0 | homalt | 98.2278 | 96.5775 | 99.9356 | 83.5174 | 1552 | 55 | 1551 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e1 | * | 95.0240 | 96.5773 | 93.5198 | 74.9627 | 72179 | 2558 | 71162 | 4931 | 419 | 8.4973 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6230 | 96.5771 | 98.6919 | 84.5324 | 2624 | 93 | 2716 | 36 | 23 | 63.8889 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e1 | het | 98.1705 | 96.5771 | 99.8173 | 61.6528 | 19666 | 697 | 19666 | 36 | 2 | 5.5556 | |
| ltrigg-rtg2 | SNP | * | map_l100_m0_e0 | het | 98.1524 | 96.5763 | 99.7808 | 50.2243 | 20479 | 726 | 20484 | 45 | 3 | 6.6667 | |