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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5201-5250 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 40.5092 | 55.2023 | 31.9936 | 87.5351 | 191 | 155 | 199 | 423 | 4 | 0.9456 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e0 | * | 89.1114 | 94.4125 | 84.3738 | 85.7309 | 1808 | 107 | 2284 | 423 | 173 | 40.8983 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.4338 | 30.6874 | 80.4889 | 73.3333 | 1759 | 3973 | 1745 | 423 | 294 | 69.5035 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.1720 | 99.8658 | 94.6197 | 41.0468 | 7442 | 10 | 7439 | 423 | 4 | 0.9456 | |
| jmaeng-gatk | INDEL | I6_15 | * | * | 97.3971 | 96.5435 | 98.2659 | 53.3907 | 23965 | 858 | 23970 | 423 | 364 | 86.0520 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | * | 84.6118 | 74.3855 | 98.0980 | 83.7120 | 21821 | 7514 | 21817 | 423 | 41 | 9.6927 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e0 | * | 99.1550 | 99.2145 | 99.0956 | 71.3320 | 46356 | 367 | 46350 | 423 | 15 | 3.5461 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.6952 | 95.8752 | 97.5293 | 67.9232 | 17084 | 735 | 16698 | 423 | 393 | 92.9078 | |
| ndellapenna-hhga | SNP | tv | * | het | 99.8309 | 99.7335 | 99.9285 | 20.7977 | 590119 | 1577 | 590138 | 422 | 45 | 10.6635 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 80.5518 | 94.6809 | 70.0921 | 54.5132 | 445 | 25 | 989 | 422 | 322 | 76.3033 | |
| gduggal-snapplat | SNP | * | map_l250_m2_e0 | het | 87.7154 | 84.4628 | 91.2284 | 94.8727 | 4387 | 807 | 4389 | 422 | 202 | 47.8673 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1950 | 75.2331 | 98.1978 | 84.5085 | 22998 | 7571 | 22994 | 422 | 45 | 10.6635 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 73.7796 | 66.9983 | 82.0883 | 30.1926 | 404 | 199 | 1934 | 422 | 418 | 99.0521 | |
| gduggal-bwafb | SNP | tv | HG002complexvar | * | 99.7871 | 99.7453 | 99.8289 | 23.3366 | 245528 | 627 | 245605 | 421 | 174 | 41.3302 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| ckim-gatk | SNP | ti | map_l125_m2_e0 | * | 85.0542 | 75.0248 | 98.1789 | 84.5122 | 22701 | 7557 | 22697 | 421 | 45 | 10.6888 | |
| qzeng-custom | SNP | * | segdup | * | 98.6778 | 98.8634 | 98.4928 | 92.2719 | 27748 | 319 | 27512 | 421 | 68 | 16.1520 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2233 | 91.0156 | 95.5407 | 66.1212 | 9168 | 905 | 9020 | 421 | 396 | 94.0618 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 47.8252 | 42.6757 | 54.3879 | 44.5978 | 504 | 677 | 502 | 421 | 421 | 100.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0051 | 99.4671 | 98.5473 | 71.4531 | 28559 | 153 | 28559 | 421 | 23 | 5.4632 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0051 | 99.4671 | 98.5473 | 71.4531 | 28559 | 153 | 28559 | 421 | 23 | 5.4632 | |
| asubramanian-gatk | INDEL | I6_15 | HG002compoundhet | * | 93.0480 | 91.1691 | 95.0059 | 37.8731 | 8001 | 775 | 8009 | 421 | 405 | 96.1995 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | het | 88.5520 | 81.2876 | 97.2421 | 86.2223 | 14848 | 3418 | 14844 | 421 | 39 | 9.2637 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 37.1767 | 79.2899 | 24.2806 | 53.7438 | 134 | 35 | 135 | 421 | 420 | 99.7625 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.3222 | 88.6547 | 76.8340 | 52.5393 | 1430 | 183 | 1393 | 420 | 417 | 99.2857 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.5839 | 81.3183 | 83.8895 | 82.0997 | 2159 | 496 | 2187 | 420 | 360 | 85.7143 | |
| gduggal-bwafb | SNP | ti | map_l100_m2_e0 | het | 98.8152 | 98.9975 | 98.6336 | 70.5993 | 30315 | 307 | 30317 | 420 | 95 | 22.6190 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e0 | * | 98.6575 | 98.6343 | 98.6808 | 78.1008 | 31417 | 435 | 31417 | 420 | 107 | 25.4762 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.6256 | 99.8294 | 91.7615 | 43.4184 | 4681 | 8 | 4678 | 420 | 1 | 0.2381 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 90.6735 | 97.5949 | 84.6689 | 62.9273 | 2313 | 57 | 2314 | 419 | 412 | 98.3294 | |
| qzeng-custom | SNP | ti | map_l100_m0_e0 | het | 81.5587 | 70.9290 | 95.9360 | 86.8580 | 9918 | 4065 | 9891 | 419 | 349 | 83.2936 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 82.9227 | 78.1124 | 88.3643 | 60.1791 | 3112 | 872 | 3182 | 419 | 327 | 78.0430 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 48.1114 | 83.3977 | 33.8073 | 56.3749 | 216 | 43 | 214 | 419 | 397 | 94.7494 | |
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | * | 94.6830 | 94.0760 | 95.2979 | 36.3455 | 8496 | 535 | 8492 | 419 | 416 | 99.2840 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 76.4099 | 73.8404 | 79.1646 | 73.0862 | 1592 | 564 | 1592 | 419 | 404 | 96.4200 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | * | 94.2413 | 93.2455 | 95.2586 | 34.8015 | 8421 | 610 | 8418 | 419 | 413 | 98.5680 | |
| ciseli-custom | SNP | * | map_l250_m2_e0 | homalt | 80.9434 | 78.5927 | 83.4390 | 87.8922 | 2111 | 575 | 2106 | 418 | 300 | 71.7703 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.7997 | 96.7251 | 66.4796 | 66.7555 | 827 | 28 | 829 | 418 | 3 | 0.7177 | |
| hfeng-pmm2 | SNP | * | map_siren | het | 99.5406 | 99.5406 | 99.5405 | 57.6094 | 90573 | 418 | 90559 | 418 | 33 | 7.8947 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 60.9836 | 60.0000 | 62.0000 | 58.6311 | 603 | 402 | 682 | 418 | 306 | 73.2057 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | * | 95.0768 | 93.6792 | 96.5167 | 65.8897 | 11575 | 781 | 11582 | 418 | 416 | 99.5215 | |
| gduggal-bwafb | SNP | * | map_l100_m0_e0 | het | 98.3117 | 98.5852 | 98.0398 | 73.2020 | 20905 | 300 | 20906 | 418 | 97 | 23.2057 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.8290 | 73.2103 | 66.7462 | 59.7115 | 992 | 363 | 839 | 418 | 413 | 98.8038 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.9444 | 77.0743 | 97.1216 | 57.5074 | 14073 | 4186 | 14070 | 417 | 292 | 70.0240 | |
| jlack-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 60.9506 | 99.3921 | 43.9516 | 87.9475 | 327 | 2 | 327 | 417 | 414 | 99.2806 | |
| jlack-gatk | SNP | tv | map_l250_m2_e1 | * | 92.1359 | 97.6337 | 87.2243 | 93.0989 | 2847 | 69 | 2847 | 417 | 24 | 5.7554 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.6815 | 98.3806 | 91.2505 | 66.8429 | 4374 | 72 | 4349 | 417 | 409 | 98.0815 | |
| ckim-isaac | SNP | ti | * | het | 98.7325 | 97.5284 | 99.9667 | 15.6908 | 1250214 | 31683 | 1250525 | 417 | 31 | 7.4341 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | het | 89.1406 | 82.1659 | 97.4093 | 86.6958 | 15683 | 3404 | 15679 | 417 | 41 | 9.8321 | |