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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78201-78250 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.2248 | 91.8756 | 81.2289 | 81.5160 | 8391 | 742 | 8646 | 1998 | 399 | 19.9700 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.2248 | 91.8756 | 81.2289 | 81.5160 | 8391 | 742 | 8646 | 1998 | 399 | 19.9700 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002compoundhet | * | 95.4940 | 92.9354 | 98.1974 | 32.8011 | 8393 | 638 | 8389 | 154 | 150 | 97.4026 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 91.6710 | 91.9194 | 91.4238 | 85.3408 | 8395 | 738 | 8283 | 777 | 129 | 16.6023 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 91.6710 | 91.9194 | 91.4238 | 85.3408 | 8395 | 738 | 8283 | 777 | 129 | 16.6023 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.2975 | 70.7032 | 98.4402 | 61.5346 | 8396 | 3479 | 8394 | 133 | 53 | 39.8496 | |
| mlin-fermikit | SNP | ti | HG002compoundhet | het | 93.4304 | 88.3535 | 99.1262 | 38.1960 | 8398 | 1107 | 8395 | 74 | 14 | 18.9189 | |
| gduggal-snapplat | SNP | tv | segdup | * | 98.7367 | 98.4294 | 99.0458 | 94.5607 | 8398 | 134 | 8408 | 81 | 13 | 16.0494 | |
| astatham-gatk | SNP | tv | segdup | * | 99.1149 | 98.4412 | 99.7979 | 91.5044 | 8399 | 133 | 8395 | 17 | 6 | 35.2941 | |
| hfeng-pmm2 | SNP | tv | HG002compoundhet | * | 96.9561 | 94.2396 | 99.8337 | 46.6519 | 8409 | 514 | 8407 | 14 | 7 | 50.0000 | |
| raldana-dualsentieon | SNP | tv | HG002compoundhet | * | 96.9959 | 94.2620 | 99.8931 | 47.1699 | 8411 | 512 | 8410 | 9 | 5 | 55.5556 | |
| qzeng-custom | SNP | tv | segdup | * | 98.3829 | 98.6521 | 98.1152 | 93.4371 | 8417 | 115 | 8381 | 161 | 27 | 16.7702 | |
| mlin-fermikit | SNP | ti | func_cds | het | 99.4565 | 98.9887 | 99.9288 | 17.2332 | 8418 | 86 | 8418 | 6 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | tv | HG002compoundhet | * | 97.0546 | 94.3517 | 99.9169 | 46.7711 | 8419 | 504 | 8417 | 7 | 7 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | * | 94.2413 | 93.2455 | 95.2586 | 34.8015 | 8421 | 610 | 8418 | 419 | 413 | 98.5680 | |
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 54.6445 | 0.0000 | 0.0000 | 8424 | 6992 | 0 | 0 | 0 | ||
| gduggal-bwavard | SNP | ti | func_cds | het | 99.2690 | 99.0710 | 99.4677 | 32.1944 | 8425 | 79 | 8409 | 45 | 15 | 33.3333 | |
| hfeng-pmm3 | SNP | tv | HG002compoundhet | * | 97.0510 | 94.4189 | 99.8341 | 47.0669 | 8425 | 498 | 8423 | 14 | 7 | 50.0000 | |
| ckim-isaac | SNP | ti | func_cds | het | 99.5275 | 99.0828 | 99.9763 | 20.1440 | 8426 | 78 | 8426 | 2 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | ti | func_cds | het | 99.3512 | 99.0945 | 99.6092 | 31.0131 | 8427 | 77 | 8411 | 33 | 13 | 39.3939 | |
| ciseli-custom | SNP | * | map_l125_m0_e0 | het | 73.0283 | 66.5824 | 80.8560 | 84.3182 | 8432 | 4232 | 8426 | 1995 | 66 | 3.3083 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 61.8858 | 52.4538 | 75.4536 | 73.3552 | 8433 | 7644 | 8318 | 2706 | 2382 | 88.0266 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 61.8858 | 52.4538 | 75.4536 | 73.3552 | 8433 | 7644 | 8318 | 2706 | 2382 | 88.0266 | |
| ciseli-custom | SNP | ti | func_cds | het | 98.4573 | 99.2121 | 97.7138 | 25.9135 | 8437 | 67 | 8420 | 197 | 2 | 1.0152 | |
| ciseli-custom | SNP | ti | map_l150_m1_e0 | het | 73.8384 | 68.2296 | 80.4520 | 83.6682 | 8440 | 3930 | 8437 | 2050 | 62 | 3.0244 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 75.6523 | 61.3266 | 98.7108 | 36.0827 | 8441 | 5323 | 7963 | 104 | 95 | 91.3462 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | * | 96.2411 | 93.4780 | 99.1726 | 30.6557 | 8442 | 589 | 8390 | 70 | 63 | 90.0000 | |
| gduggal-bwaplat | SNP | ti | func_cds | het | 99.4112 | 99.2709 | 99.5519 | 36.3268 | 8442 | 62 | 8442 | 38 | 4 | 10.5263 | |
| ckim-gatk | SNP | tv | map_l125_m2_e0 | het | 87.7913 | 80.8849 | 95.9873 | 88.0575 | 8446 | 1996 | 8444 | 353 | 14 | 3.9660 | |
| jpowers-varprowl | SNP | tv | segdup | * | 97.6941 | 99.0272 | 96.3964 | 93.1340 | 8449 | 83 | 8453 | 316 | 33 | 10.4430 | |
| gduggal-snapplat | SNP | ti | func_cds | het | 99.3942 | 99.3532 | 99.4351 | 33.3621 | 8449 | 55 | 8449 | 48 | 4 | 8.3333 | |
| jpowers-varprowl | SNP | ti | func_cds | het | 99.3416 | 99.3650 | 99.3183 | 29.2650 | 8450 | 54 | 8450 | 58 | 2 | 3.4483 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 65.1709 | 54.2531 | 81.5900 | 69.4864 | 8451 | 7126 | 8323 | 1878 | 1704 | 90.7348 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.9166 | 92.5873 | 97.3660 | 75.0931 | 8456 | 677 | 8465 | 229 | 6 | 2.6201 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.9166 | 92.5873 | 97.3660 | 75.0931 | 8456 | 677 | 8465 | 229 | 6 | 2.6201 | |
| jmaeng-gatk | SNP | tv | map_l125_m2_e0 | het | 87.7835 | 81.0668 | 95.7136 | 88.2752 | 8465 | 1977 | 8463 | 379 | 12 | 3.1662 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e1 | het | 78.3815 | 65.0480 | 98.5906 | 91.4083 | 8466 | 4549 | 8464 | 121 | 2 | 1.6529 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | homalt | 95.2868 | 91.0664 | 99.9174 | 66.1273 | 8471 | 831 | 8471 | 7 | 2 | 28.5714 | |
| jmaeng-gatk | SNP | tv | segdup | * | 98.1687 | 99.3085 | 97.0548 | 94.6921 | 8473 | 59 | 8469 | 257 | 8 | 3.1128 | |
| asubramanian-gatk | INDEL | D6_15 | HG002compoundhet | * | 94.5808 | 93.8213 | 95.3528 | 36.4670 | 8473 | 558 | 8474 | 413 | 394 | 95.3995 | |
| asubramanian-gatk | SNP | ti | func_cds | het | 99.6530 | 99.6472 | 99.6589 | 31.5760 | 8474 | 30 | 8472 | 29 | 1 | 3.4483 | |
| gduggal-bwafb | SNP | tv | segdup | * | 98.7191 | 99.3671 | 98.0796 | 93.0076 | 8478 | 54 | 8478 | 166 | 14 | 8.4337 | |
| ckim-gatk | SNP | tv | segdup | * | 98.7820 | 99.3671 | 98.2037 | 94.6419 | 8478 | 54 | 8474 | 155 | 6 | 3.8710 | |
| ciseli-custom | SNP | * | map_l150_m0_e0 | * | 75.3031 | 70.4787 | 80.8364 | 85.2202 | 8480 | 3552 | 8466 | 2007 | 507 | 25.2616 | |
| astatham-gatk | SNP | ti | func_cds | het | 99.8234 | 99.7178 | 99.9293 | 24.2094 | 8480 | 24 | 8478 | 6 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | HG002compoundhet | * | 95.2970 | 93.9320 | 96.7022 | 31.4437 | 8483 | 548 | 9882 | 337 | 326 | 96.7359 | |
| ckim-isaac | SNP | * | map_l125_m1_e0 | homalt | 66.8137 | 50.1804 | 99.9411 | 61.4585 | 8483 | 8422 | 8483 | 5 | 5 | 100.0000 | |
| gduggal-snapfb | SNP | tv | segdup | * | 98.5144 | 99.4491 | 97.5971 | 92.7173 | 8485 | 47 | 8489 | 209 | 12 | 5.7416 | |
| ckim-vqsr | SNP | ti | func_cds | het | 99.7473 | 99.8119 | 99.6828 | 33.7510 | 8488 | 16 | 8486 | 27 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | tv | segdup | * | 97.0800 | 99.5077 | 94.7680 | 93.4258 | 8490 | 42 | 8495 | 469 | 32 | 6.8230 | |