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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11351-11400 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | * | 70.5188 | 55.3329 | 97.1931 | 96.2932 | 4363 | 3522 | 4363 | 126 | 10 | 7.9365 | |
| jmaeng-gatk | SNP | tv | func_cds | * | 99.2038 | 99.7941 | 98.6205 | 39.0741 | 4362 | 9 | 4361 | 61 | 0 | 0.0000 | |
| ckim-gatk | SNP | tv | func_cds | * | 99.5776 | 99.7941 | 99.3620 | 38.5208 | 4362 | 9 | 4361 | 28 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | map_l125_m0_e0 | het | 98.2208 | 99.1138 | 97.3437 | 79.3814 | 4362 | 39 | 4361 | 119 | 15 | 12.6050 | |
| astatham-gatk | SNP | ti | map_l250_m2_e0 | * | 92.8085 | 87.1006 | 99.3169 | 90.7841 | 4362 | 646 | 4362 | 30 | 12 | 40.0000 | |
| astatham-gatk | SNP | tv | func_cds | * | 99.8283 | 99.7483 | 99.9083 | 29.1951 | 4360 | 11 | 4359 | 4 | 0 | 0.0000 | |
| qzeng-custom | SNP | tv | func_cds | * | 99.6678 | 99.6797 | 99.6560 | 35.7311 | 4357 | 14 | 4345 | 15 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 59.6364 | 59.0060 | 60.2804 | 68.5856 | 4357 | 3027 | 6148 | 4051 | 1556 | 38.4103 | |
| ghariani-varprowl | SNP | tv | func_cds | * | 99.2142 | 99.6568 | 98.7755 | 38.2266 | 4356 | 15 | 4356 | 54 | 5 | 9.2593 | |
| ckim-vqsr | SNP | tv | func_cds | * | 99.7367 | 99.6568 | 99.8166 | 38.6616 | 4356 | 15 | 4355 | 8 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | map_siren | het | 97.3739 | 96.6060 | 98.1540 | 87.1388 | 4355 | 153 | 4360 | 82 | 11 | 13.4146 | |
| ltrigg-rtg2 | SNP | * | map_l250_m1_e0 | het | 95.5463 | 91.5878 | 99.8624 | 74.1983 | 4355 | 400 | 4355 | 6 | 1 | 16.6667 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 64.4294 | 85.0889 | 51.8421 | 37.0340 | 4354 | 763 | 4334 | 4026 | 3730 | 92.6478 | |
| dgrover-gatk | SNP | tv | map_l125_m0_e0 | het | 98.4509 | 98.9321 | 97.9743 | 81.0960 | 4354 | 47 | 4353 | 90 | 15 | 16.6667 | |
| hfeng-pmm3 | SNP | tv | map_l125_m0_e0 | het | 99.0220 | 98.9321 | 99.1120 | 76.4302 | 4354 | 47 | 4353 | 39 | 3 | 7.6923 | |
| gduggal-bwavard | SNP | ti | map_l125_m0_e0 | homalt | 98.3384 | 96.9272 | 99.7913 | 70.3716 | 4353 | 138 | 4304 | 9 | 7 | 77.7778 | |
| ghariani-varprowl | SNP | tv | map_l125_m0_e0 | het | 95.4481 | 98.8639 | 92.2604 | 83.4014 | 4351 | 50 | 4351 | 365 | 64 | 17.5342 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | * | 86.1545 | 95.0207 | 78.8017 | 91.2590 | 4351 | 228 | 4327 | 1164 | 68 | 5.8419 | |
| asubramanian-gatk | SNP | tv | func_cds | * | 99.5422 | 99.4967 | 99.5877 | 36.6971 | 4349 | 22 | 4348 | 18 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6759 | 93.5657 | 100.0000 | 27.8543 | 4348 | 299 | 4398 | 0 | 0 | ||
| hfeng-pmm2 | SNP | tv | map_l125_m0_e0 | het | 98.4153 | 98.7957 | 98.0379 | 79.2988 | 4348 | 53 | 4347 | 87 | 9 | 10.3448 | |
| ciseli-custom | SNP | tv | func_cds | * | 95.2555 | 99.4738 | 91.3804 | 30.2616 | 4348 | 23 | 4336 | 409 | 11 | 2.6895 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.1299 | 89.8491 | 96.6594 | 59.1348 | 4346 | 491 | 4456 | 154 | 72 | 46.7532 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 67.2347 | 77.6447 | 59.2860 | 62.9451 | 4345 | 1251 | 4683 | 3216 | 1125 | 34.9813 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 84.9840 | 84.8017 | 85.1670 | 81.2419 | 4341 | 778 | 4335 | 755 | 704 | 93.2450 | |
| hfeng-pmm1 | SNP | tv | map_l125_m0_e0 | het | 98.9058 | 98.5912 | 99.2223 | 76.3803 | 4339 | 62 | 4338 | 34 | 9 | 26.4706 | |
| rpoplin-dv42 | SNP | tv | map_l125_m0_e0 | het | 98.3333 | 98.5458 | 98.1217 | 74.3380 | 4337 | 64 | 4336 | 83 | 43 | 51.8072 | |
| jpowers-varprowl | SNP | ti | map_l250_m1_e0 | * | 95.2339 | 94.6932 | 95.7809 | 91.0914 | 4336 | 243 | 4336 | 191 | 57 | 29.8429 | |
| jpowers-varprowl | SNP | tv | func_cds | * | 98.8262 | 99.1993 | 98.4559 | 36.2571 | 4336 | 35 | 4336 | 68 | 5 | 7.3529 | |
| jlack-gatk | SNP | tv | map_l125_m0_e0 | het | 90.4803 | 98.5003 | 83.6680 | 86.8150 | 4335 | 66 | 4334 | 846 | 47 | 5.5556 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m1_e0 | * | 97.1749 | 94.6495 | 99.8389 | 79.6190 | 4334 | 245 | 4337 | 7 | 4 | 57.1429 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 88.6934 | 79.9189 | 99.6323 | 81.5479 | 4334 | 1089 | 4335 | 16 | 15 | 93.7500 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 88.6934 | 79.9189 | 99.6323 | 81.5479 | 4334 | 1089 | 4335 | 16 | 15 | 93.7500 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 28.1118 | 0.0000 | 0.0000 | 4334 | 11083 | 0 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | * | map_siren | het | 97.4658 | 96.1180 | 98.8519 | 76.2761 | 4333 | 175 | 4305 | 50 | 3 | 6.0000 | |
| mlin-fermikit | SNP | tv | func_cds | * | 99.2667 | 99.1078 | 99.4262 | 22.7208 | 4332 | 39 | 4332 | 25 | 14 | 56.0000 | |
| eyeh-varpipe | INDEL | * | map_siren | het | 96.4251 | 96.0958 | 96.7566 | 78.9179 | 4332 | 176 | 4803 | 161 | 108 | 67.0807 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 87.6933 | 79.6065 | 97.6088 | 41.6096 | 4329 | 1109 | 4327 | 106 | 105 | 99.0566 | |
| raldana-dualsentieon | SNP | tv | map_l125_m0_e0 | het | 98.3750 | 98.3640 | 98.3860 | 76.8948 | 4329 | 72 | 4328 | 71 | 1 | 1.4085 | |
| gduggal-snapplat | INDEL | D1_5 | * | hetalt | 56.5026 | 42.2548 | 85.2469 | 84.6995 | 4329 | 5916 | 4403 | 762 | 572 | 75.0656 | |
| gduggal-snapplat | SNP | tv | func_cds | * | 99.2890 | 99.0391 | 99.5401 | 39.3276 | 4329 | 42 | 4329 | 20 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8606 | 97.3459 | 98.3807 | 45.3197 | 4328 | 118 | 12333 | 203 | 185 | 91.1330 | |
| gduggal-bwaplat | SNP | tv | func_cds | * | 99.4027 | 98.9934 | 99.8155 | 42.5143 | 4327 | 44 | 4327 | 8 | 0 | 0.0000 | |
| ckim-dragen | SNP | tv | map_l125_m0_e0 | het | 97.2122 | 98.2504 | 96.1958 | 81.1222 | 4324 | 77 | 4324 | 171 | 10 | 5.8480 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3880 | 93.0278 | 100.0000 | 27.8191 | 4323 | 324 | 4372 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3667 | 93.0278 | 99.9543 | 26.6834 | 4323 | 324 | 4375 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | * | HG002compoundhet | * | 14.6648 | 14.4226 | 14.9152 | 58.8895 | 4321 | 25639 | 4329 | 24695 | 23984 | 97.1209 | |
| ckim-isaac | SNP | ti | map_l150_m0_e0 | * | 70.8651 | 54.9676 | 99.7000 | 80.5441 | 4321 | 3540 | 4321 | 13 | 3 | 23.0769 | |
| gduggal-snapplat | INDEL | D1_5 | HG002compoundhet | hetalt | 57.5062 | 42.2964 | 89.7972 | 79.0515 | 4321 | 5895 | 4383 | 498 | 424 | 85.1406 | |
| gduggal-bwavard | SNP | tv | map_l125_m0_e0 | het | 89.1615 | 98.1141 | 81.7062 | 85.2941 | 4318 | 83 | 4310 | 965 | 30 | 3.1088 | |