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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25701-25750 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 96.9512 | 96.3636 | 97.5460 | 90.9595 | 159 | 6 | 159 | 4 | 2 | 50.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.3104 | 96.3636 | 98.2759 | 72.6415 | 53 | 2 | 57 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 98.1481 | 96.3636 | 100.0000 | 90.9556 | 106 | 4 | 106 | 0 | 0 | ||
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.3541 | 96.3636 | 98.3651 | 75.9186 | 371 | 14 | 361 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.6959 | 96.3636 | 99.0654 | 92.3517 | 106 | 4 | 106 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5422 | 96.3636 | 98.7500 | 90.1356 | 159 | 6 | 158 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.5589 | 96.3636 | 92.8205 | 77.9037 | 371 | 14 | 362 | 28 | 18 | 64.2857 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.4138 | 96.3627 | 78.3270 | 66.2442 | 16929 | 639 | 17004 | 4705 | 98 | 2.0829 | |
| ckim-dragen | SNP | tv | map_l250_m1_e0 | het | 96.1474 | 96.3626 | 95.9331 | 90.7498 | 1722 | 65 | 1722 | 73 | 4 | 5.4795 | |
| gduggal-bwafb | SNP | tv | map_l250_m1_e0 | het | 96.5517 | 96.3626 | 96.7416 | 89.4306 | 1722 | 65 | 1722 | 58 | 11 | 18.9655 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.2099 | 96.3623 | 73.2167 | 70.3492 | 32026 | 1209 | 47861 | 17508 | 14830 | 84.7041 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e0 | het | 81.9515 | 96.3612 | 71.2908 | 92.3358 | 5005 | 189 | 4954 | 1995 | 92 | 4.6115 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.8974 | 96.3612 | 97.4395 | 71.6647 | 715 | 27 | 685 | 18 | 7 | 38.8889 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6651 | 96.3610 | 96.9712 | 69.6092 | 3919 | 148 | 3906 | 122 | 111 | 90.9836 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m1_e0 | het | 96.5230 | 96.3606 | 96.6860 | 89.4465 | 1165 | 44 | 1167 | 40 | 4 | 10.0000 | |
| cchapple-custom | SNP | * | map_l125_m0_e0 | het | 95.3778 | 96.3598 | 94.4157 | 80.7050 | 12203 | 461 | 12207 | 722 | 175 | 24.2382 | |
| egarrison-hhga | SNP | ti | map_l250_m0_e0 | het | 97.7729 | 96.3597 | 99.2282 | 93.4065 | 900 | 34 | 900 | 7 | 1 | 14.2857 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9353 | 96.3590 | 99.5640 | 26.8986 | 5240 | 198 | 5252 | 23 | 22 | 95.6522 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2830 | 96.3585 | 98.2253 | 48.3467 | 19846 | 750 | 19870 | 359 | 319 | 88.8579 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 74.2424 | 96.3582 | 60.3834 | 43.4396 | 10028 | 379 | 9985 | 6551 | 6388 | 97.5118 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.1705 | 96.3571 | 95.9846 | 35.8391 | 6983 | 264 | 6980 | 292 | 133 | 45.5479 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e1 | homalt | 98.0418 | 96.3556 | 99.7880 | 62.8493 | 26783 | 1013 | 26357 | 56 | 43 | 76.7857 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m0_e0 | het | 95.8669 | 96.3542 | 95.3846 | 86.8243 | 185 | 7 | 186 | 9 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m0_e0 | het | 97.8850 | 96.3542 | 99.4652 | 88.8955 | 185 | 7 | 186 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.1326 | 96.3537 | 99.9783 | 25.7249 | 4598 | 174 | 4610 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e1 | het | 82.0702 | 96.3526 | 71.4754 | 92.4111 | 5072 | 192 | 5019 | 2003 | 93 | 4.6430 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e1 | * | 97.6390 | 96.3525 | 98.9603 | 79.8456 | 3619 | 137 | 3617 | 38 | 6 | 15.7895 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | homalt | 98.0408 | 96.3523 | 99.7895 | 60.4906 | 26018 | 985 | 25605 | 54 | 41 | 75.9259 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.3579 | 96.3517 | 96.3641 | 60.0124 | 8055 | 305 | 8057 | 304 | 143 | 47.0395 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.3579 | 96.3517 | 96.3641 | 60.0124 | 8055 | 305 | 8057 | 304 | 143 | 47.0395 | |
| ckim-isaac | SNP | * | segdup | homalt | 98.1370 | 96.3511 | 99.9903 | 85.3967 | 10351 | 392 | 10351 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.7404 | 96.3511 | 97.1328 | 51.7215 | 13282 | 503 | 13280 | 392 | 385 | 98.2143 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.7243 | 96.3506 | 97.1009 | 69.6907 | 2561 | 97 | 2579 | 77 | 32 | 41.5584 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.7738 | 96.3504 | 99.2400 | 58.5695 | 924 | 35 | 914 | 7 | 5 | 71.4286 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.3617 | 96.3504 | 98.3945 | 78.0353 | 396 | 15 | 429 | 7 | 7 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.5385 | 96.3504 | 98.7562 | 71.8093 | 396 | 15 | 397 | 5 | 5 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 98.0296 | 96.3499 | 99.7688 | 70.6232 | 1663 | 63 | 1726 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7287 | 96.3493 | 99.1483 | 61.3786 | 5120 | 194 | 5122 | 44 | 31 | 70.4545 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.4202 | 96.3492 | 96.4912 | 68.0265 | 607 | 23 | 605 | 22 | 7 | 31.8182 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.4329 | 96.3492 | 98.5413 | 62.2630 | 607 | 23 | 608 | 9 | 8 | 88.8889 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5100 | 96.3492 | 98.6992 | 65.8143 | 607 | 23 | 607 | 8 | 5 | 62.5000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.6512 | 96.3492 | 96.9551 | 67.3640 | 607 | 23 | 605 | 19 | 7 | 36.8421 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.4540 | 96.3472 | 98.5866 | 68.3439 | 15008 | 569 | 14997 | 215 | 126 | 58.6047 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m1_e0 | * | 97.6819 | 96.3469 | 99.0544 | 78.3512 | 3455 | 131 | 3457 | 33 | 4 | 12.1212 | |
| gduggal-snapvard | SNP | * | map_siren | homalt | 98.0593 | 96.3449 | 99.8358 | 52.8740 | 53140 | 2016 | 52295 | 86 | 67 | 77.9070 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.1383 | 96.3446 | 100.0000 | 78.0038 | 369 | 14 | 346 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I1_5 | map_l100_m2_e1 | * | 95.9578 | 96.3441 | 95.5746 | 86.0998 | 1344 | 51 | 1339 | 62 | 13 | 20.9677 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | homalt | 97.8208 | 96.3434 | 99.3443 | 91.6882 | 606 | 23 | 606 | 4 | 4 | 100.0000 | |