PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12801-12850 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7825 | 99.5948 | 99.9709 | 62.1467 | 3441 | 14 | 3441 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 92.2399 | 86.3055 | 99.0506 | 51.0836 | 3441 | 546 | 3443 | 33 | 14 | 42.4242 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 63.9702 | 49.9564 | 88.9115 | 43.5949 | 3440 | 3446 | 3496 | 436 | 391 | 89.6789 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7680 | 99.5658 | 99.9709 | 62.5612 | 3440 | 15 | 3440 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6524 | 99.7101 | 99.5947 | 36.6587 | 3440 | 10 | 3440 | 14 | 2 | 14.2857 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6813 | 99.7101 | 99.6525 | 34.1910 | 3440 | 10 | 3441 | 12 | 3 | 25.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6666 | 99.6812 | 99.6520 | 39.8884 | 3439 | 11 | 3436 | 12 | 2 | 16.6667 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.3491 | 99.6812 | 89.5584 | 44.0081 | 3439 | 11 | 3448 | 402 | 4 | 0.9950 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 73.6558 | 85.1238 | 64.9109 | 67.0798 | 3439 | 601 | 3241 | 1752 | 1680 | 95.8904 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3772 | 99.5369 | 99.2181 | 66.4594 | 3439 | 16 | 3426 | 27 | 14 | 51.8519 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7101 | 99.5369 | 99.8839 | 62.7379 | 3439 | 16 | 3442 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7534 | 99.6812 | 99.8257 | 39.7409 | 3439 | 11 | 3436 | 6 | 2 | 33.3333 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.2269 | 89.9059 | 98.9842 | 47.2854 | 3438 | 386 | 3508 | 36 | 35 | 97.2222 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6954 | 99.4790 | 99.9128 | 62.0351 | 3437 | 18 | 3437 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e0 | * | 90.5115 | 93.0138 | 88.1404 | 88.0002 | 3435 | 258 | 3441 | 463 | 191 | 41.2527 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6953 | 99.4211 | 99.9709 | 62.6075 | 3435 | 20 | 3435 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 38.9448 | 36.3079 | 41.9946 | 48.7568 | 3434 | 6024 | 3436 | 4746 | 4690 | 98.8201 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5073 | 99.5362 | 99.4784 | 36.9220 | 3434 | 16 | 3433 | 18 | 5 | 27.7778 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | * | 77.9452 | 82.2472 | 74.0709 | 86.1595 | 3433 | 741 | 3428 | 1200 | 357 | 29.7500 | |
| qzeng-custom | SNP | * | map_l250_m2_e0 | het | 76.2572 | 66.0955 | 90.1111 | 96.3398 | 3433 | 1761 | 3408 | 374 | 309 | 82.6203 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 83.5892 | 71.9405 | 99.7391 | 27.4753 | 3433 | 1339 | 3441 | 9 | 9 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6237 | 97.0597 | 98.1943 | 69.6107 | 3433 | 104 | 3426 | 63 | 42 | 66.6667 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7240 | 99.4783 | 99.9709 | 35.3959 | 3432 | 18 | 3434 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5931 | 99.3054 | 99.8825 | 45.7630 | 3431 | 24 | 3401 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | * | HG002complexvar | hetalt | 95.4523 | 92.7548 | 98.3114 | 67.8279 | 3431 | 268 | 3668 | 63 | 63 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_siren | * | 97.2391 | 97.2230 | 97.2552 | 80.6160 | 3431 | 98 | 3685 | 104 | 64 | 61.5385 | |
| ciseli-custom | SNP | tv | map_l150_m2_e1 | homalt | 85.5896 | 82.9463 | 88.4069 | 74.3629 | 3429 | 705 | 3424 | 449 | 348 | 77.5056 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3614 | 99.3623 | 99.3605 | 44.2283 | 3428 | 22 | 3418 | 22 | 3 | 13.6364 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6068 | 96.9183 | 98.3051 | 69.3951 | 3428 | 109 | 3422 | 59 | 39 | 66.1017 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.2726 | 71.7728 | 99.1604 | 47.4357 | 3425 | 1347 | 3425 | 29 | 27 | 93.1034 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m1_e0 | * | 97.3566 | 95.5103 | 99.2756 | 78.9689 | 3425 | 161 | 3426 | 25 | 7 | 28.0000 | |
| astatham-gatk | INDEL | D1_5 | map_siren | * | 97.9977 | 97.0247 | 98.9905 | 82.3184 | 3424 | 105 | 3432 | 35 | 6 | 17.1429 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5204 | 99.2464 | 99.7960 | 35.7063 | 3424 | 26 | 3425 | 7 | 4 | 57.1429 | |
| ghariani-varprowl | INDEL | * | map_l100_m2_e0 | * | 90.4686 | 92.6889 | 88.3523 | 92.4226 | 3423 | 270 | 3421 | 451 | 206 | 45.6763 | |
| gduggal-snapfb | INDEL | D1_5 | map_siren | * | 96.5488 | 96.9963 | 96.1054 | 82.0770 | 3423 | 106 | 3430 | 139 | 27 | 19.4245 | |
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 38.5774 | 33.9720 | 44.6273 | 63.2598 | 3422 | 6651 | 5395 | 6694 | 4337 | 64.7894 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4476 | 99.1594 | 99.7375 | 38.8443 | 3421 | 29 | 3420 | 9 | 2 | 22.2222 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 24.8474 | 0.0000 | 0.0000 | 3420 | 10344 | 0 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l250_m1_e0 | * | 64.1591 | 47.3553 | 99.4475 | 90.4206 | 3420 | 3802 | 3420 | 19 | 3 | 15.7895 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.5247 | 98.9580 | 96.1323 | 63.1557 | 3419 | 36 | 3430 | 138 | 1 | 0.7246 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4618 | 98.9580 | 99.9708 | 57.7056 | 3419 | 36 | 3424 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5487 | 99.1014 | 100.0000 | 35.3153 | 3419 | 31 | 3416 | 0 | 0 | ||
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.5655 | 87.6892 | 93.6369 | 59.5069 | 3419 | 480 | 3414 | 232 | 224 | 96.5517 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.8519 | 95.9843 | 97.7354 | 64.7626 | 3418 | 143 | 3539 | 82 | 70 | 85.3659 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.1636 | 99.0725 | 95.3268 | 47.5871 | 3418 | 32 | 3427 | 168 | 33 | 19.6429 | |
| ckim-vqsr | SNP | * | map_l100_m0_e0 | homalt | 45.4479 | 29.4062 | 100.0000 | 84.0267 | 3417 | 8203 | 3417 | 0 | 0 | ||
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4759 | 99.0435 | 99.9122 | 35.7223 | 3417 | 33 | 3414 | 3 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4759 | 99.0435 | 99.9122 | 35.0997 | 3417 | 33 | 3414 | 3 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | * | 93.3057 | 90.9478 | 95.7892 | 85.0002 | 3416 | 340 | 3435 | 151 | 40 | 26.4901 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6386 | 95.9000 | 99.4413 | 58.6605 | 3415 | 146 | 3382 | 19 | 14 | 73.6842 | |