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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50951-51000 / 86044 show all | |||||||||||||||
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.7525 | 99.1025 | 75.5722 | 63.2591 | 3975 | 36 | 4028 | 1302 | 33 | 2.5346 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5829 | 98.9638 | 98.2048 | 63.2584 | 35052 | 367 | 35066 | 641 | 28 | 4.3682 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 49.3293 | 70.3704 | 37.9747 | 63.2558 | 19 | 8 | 30 | 49 | 32 | 65.3061 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.8579 | 97.8289 | 84.8143 | 63.2556 | 10499 | 233 | 10461 | 1873 | 64 | 3.4170 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4577 | 99.1576 | 99.7596 | 63.2532 | 17420 | 148 | 17430 | 42 | 21 | 50.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 79.0807 | 98.3607 | 66.1202 | 63.2530 | 120 | 2 | 121 | 62 | 56 | 90.3226 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.6598 | 95.2648 | 96.0580 | 63.2518 | 3058 | 152 | 3046 | 125 | 116 | 92.8000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.1650 | 100.0000 | 98.3438 | 63.2517 | 2494 | 0 | 2494 | 42 | 1 | 2.3810 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.4646 | 97.0242 | 97.9090 | 63.2516 | 1565 | 48 | 2669 | 57 | 50 | 87.7193 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.8755 | 94.0503 | 99.8757 | 63.2515 | 10512 | 665 | 10446 | 13 | 13 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 55.8033 | 65.7682 | 48.4608 | 63.2482 | 488 | 254 | 488 | 519 | 513 | 98.8439 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.4739 | 99.4515 | 93.6694 | 63.2423 | 3989 | 22 | 3995 | 270 | 19 | 7.0370 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.9388 | 97.7778 | 76.6571 | 63.2415 | 264 | 6 | 266 | 81 | 78 | 96.2963 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.2125 | 91.3158 | 99.4565 | 63.2368 | 347 | 33 | 366 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | * | hetalt | 97.2343 | 95.0220 | 99.5520 | 63.2355 | 9735 | 510 | 9778 | 44 | 43 | 97.7273 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.0734 | 81.3559 | 96.0000 | 63.2353 | 48 | 11 | 48 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5857 | 99.4940 | 99.6776 | 63.2345 | 2163 | 11 | 2164 | 7 | 2 | 28.5714 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| jpowers-varprowl | INDEL | I16_PLUS | HG002complexvar | * | 64.1165 | 56.5317 | 74.0519 | 63.2294 | 740 | 569 | 742 | 260 | 258 | 99.2308 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 80.7504 | 86.1111 | 76.0181 | 63.2280 | 496 | 80 | 504 | 159 | 37 | 23.2704 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.2821 | 93.1389 | 99.6448 | 63.2266 | 543 | 40 | 561 | 2 | 2 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l125_m2_e0 | homalt | 99.5541 | 99.2604 | 99.8495 | 63.2256 | 11274 | 84 | 11279 | 17 | 16 | 94.1176 | |
| mlin-fermikit | SNP | ti | map_l150_m0_e0 | * | 48.0167 | 33.6471 | 83.8086 | 63.2254 | 2645 | 5216 | 2645 | 511 | 462 | 90.4110 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.7805 | 96.6355 | 96.9260 | 63.2253 | 3102 | 108 | 3090 | 98 | 93 | 94.8980 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 77.5015 | 89.8990 | 68.1090 | 63.2249 | 1958 | 220 | 2125 | 995 | 950 | 95.4774 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 37.9373 | 39.6694 | 36.3501 | 63.2242 | 384 | 584 | 976 | 1709 | 1112 | 65.0673 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8145 | 99.6296 | 100.0000 | 63.2231 | 269 | 1 | 267 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.5154 | 97.1471 | 99.9228 | 63.2207 | 1294 | 38 | 1294 | 1 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 93.7973 | 90.9091 | 96.8750 | 63.2184 | 30 | 3 | 31 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 93.7973 | 90.9091 | 96.8750 | 63.2184 | 30 | 3 | 31 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 93.7973 | 90.9091 | 96.8750 | 63.2184 | 30 | 3 | 31 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.7654 | 96.6355 | 96.8956 | 63.2180 | 3102 | 108 | 3090 | 99 | 94 | 94.9495 | |
| raldana-dualsentieon | SNP | tv | map_l125_m1_e0 | homalt | 99.7865 | 99.6758 | 99.8974 | 63.2172 | 5841 | 19 | 5841 | 6 | 3 | 50.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m0_e0 | homalt | 99.7918 | 99.7140 | 99.8697 | 63.2094 | 3835 | 11 | 3833 | 5 | 2 | 40.0000 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | het | 68.7756 | 84.4907 | 57.9897 | 63.2088 | 1460 | 268 | 1125 | 815 | 730 | 89.5706 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002compoundhet | * | 96.3303 | 94.1081 | 98.6599 | 63.2057 | 11628 | 728 | 11632 | 158 | 151 | 95.5696 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.1768 | 97.7361 | 96.6239 | 63.2047 | 6044 | 140 | 5953 | 208 | 24 | 11.5385 | |
| egarrison-hhga | SNP | tv | map_l100_m1_e0 | * | 99.4963 | 99.1715 | 99.8233 | 63.2033 | 24298 | 203 | 24298 | 43 | 19 | 44.1860 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 53.7099 | 42.3437 | 73.4172 | 63.2026 | 2851 | 3882 | 3850 | 1394 | 367 | 26.3271 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 51.7959 | 37.2013 | 85.2349 | 63.2016 | 1401 | 2365 | 1397 | 242 | 216 | 89.2562 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 51.7959 | 37.2013 | 85.2349 | 63.2016 | 1401 | 2365 | 1397 | 242 | 216 | 89.2562 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 78.7229 | 70.4918 | 89.1304 | 63.2000 | 43 | 18 | 41 | 5 | 2 | 40.0000 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.7847 | 94.6676 | 94.9020 | 63.1937 | 45697 | 2574 | 44659 | 2399 | 1704 | 71.0296 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e0 | homalt | 99.4217 | 99.0660 | 99.7800 | 63.1898 | 18138 | 171 | 18138 | 40 | 28 | 70.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5181 | 86.3806 | 95.0719 | 63.1897 | 463 | 73 | 463 | 24 | 21 | 87.5000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4622 | 99.2509 | 99.6743 | 63.1894 | 265 | 2 | 306 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 82.1636 | 88.4927 | 76.6793 | 63.1888 | 3599 | 468 | 3847 | 1170 | 372 | 31.7949 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.3739 | 93.3105 | 99.6454 | 63.1854 | 544 | 39 | 562 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.2933 | 90.4234 | 98.5092 | 63.1853 | 17704 | 1875 | 17841 | 270 | 18 | 6.6667 | |