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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74401-74450 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | ti | map_l150_m2_e1 | * | 99.2396 | 99.1990 | 99.2803 | 78.3146 | 20557 | 166 | 20553 | 149 | 36 | 24.1611 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0078 | 97.9824 | 98.0331 | 65.1766 | 1894 | 39 | 1894 | 38 | 36 | 94.7368 | |
| ckim-isaac | SNP | * | HG002compoundhet | het | 87.1652 | 78.2691 | 98.3428 | 43.2349 | 11097 | 3081 | 11631 | 196 | 36 | 18.3673 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.1176 | 93.9650 | 96.2988 | 73.4406 | 1448 | 93 | 1431 | 55 | 36 | 65.4545 | |
| egarrison-hhga | SNP | * | segdup | homalt | 99.7815 | 99.8976 | 99.6657 | 89.1087 | 10732 | 11 | 10732 | 36 | 36 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4755 | 99.3161 | 99.6354 | 69.3829 | 11473 | 79 | 11478 | 42 | 36 | 85.7143 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4755 | 99.3161 | 99.6354 | 69.3829 | 11473 | 79 | 11478 | 42 | 36 | 85.7143 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5328 | 99.2846 | 99.7822 | 62.2610 | 27480 | 198 | 27491 | 60 | 36 | 60.0000 | |
| egarrison-hhga | INDEL | * | segdup | * | 97.9435 | 97.7700 | 98.1176 | 98.6833 | 2499 | 57 | 2502 | 48 | 36 | 75.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.2971 | 80.2083 | 88.8252 | 77.8834 | 308 | 76 | 310 | 39 | 36 | 92.3077 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 73.8603 | 58.8768 | 99.0735 | 33.2105 | 4812 | 3361 | 4491 | 42 | 36 | 85.7143 | |
| ckim-isaac | INDEL | D1_5 | * | homalt | 97.8426 | 95.9899 | 99.7683 | 50.1114 | 46964 | 1962 | 46933 | 109 | 36 | 33.0275 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.6255 | 94.6746 | 64.3564 | 81.0507 | 160 | 9 | 65 | 36 | 36 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.0103 | 95.8580 | 64.3564 | 80.8712 | 162 | 7 | 65 | 36 | 36 | 100.0000 | |
| jlack-gatk | INDEL | * | map_siren | * | 96.8350 | 98.5155 | 95.2108 | 84.4494 | 7300 | 110 | 7316 | 368 | 36 | 9.7826 | |
| jlack-gatk | INDEL | D16_PLUS | HG002complexvar | * | 96.5938 | 96.2264 | 96.9641 | 66.5839 | 1581 | 62 | 1565 | 49 | 36 | 73.4694 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 94.6297 | 90.2717 | 99.4297 | 29.8103 | 7275 | 784 | 7323 | 42 | 36 | 85.7143 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 94.6297 | 90.2717 | 99.4297 | 29.8103 | 7275 | 784 | 7323 | 42 | 36 | 85.7143 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.0646 | 99.1518 | 98.9776 | 67.7712 | 3507 | 30 | 3485 | 36 | 36 | 100.0000 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 22.9630 | 94.9400 | 0 | 0 | 31 | 104 | 36 | 34.6154 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m1_e0 | homalt | 78.3964 | 77.1930 | 79.6380 | 89.0810 | 176 | 52 | 176 | 45 | 36 | 80.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 58.3686 | 63.6364 | 53.9062 | 70.1284 | 133 | 76 | 138 | 118 | 36 | 30.5085 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 87.2686 | 88.7234 | 85.8607 | 64.7399 | 417 | 53 | 419 | 69 | 36 | 52.1739 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m2_e1 | homalt | 53.9043 | 40.0000 | 82.6255 | 84.1880 | 216 | 324 | 214 | 45 | 36 | 80.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.8949 | 94.4670 | 99.4508 | 25.3587 | 6505 | 381 | 6519 | 36 | 36 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | hetalt | 93.7506 | 91.2142 | 96.4321 | 47.8822 | 924 | 89 | 973 | 36 | 36 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4252 | 93.5104 | 99.5276 | 29.6399 | 7536 | 523 | 7584 | 36 | 36 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4252 | 93.5104 | 99.5276 | 29.6399 | 7536 | 523 | 7584 | 36 | 36 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | HG002complexvar | het | 95.3100 | 93.9476 | 96.7125 | 59.3663 | 1040 | 67 | 1265 | 43 | 36 | 83.7209 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.0940 | 96.7742 | 97.4160 | 59.9171 | 510 | 17 | 1508 | 40 | 36 | 90.0000 | |
| cchapple-custom | INDEL | D1_5 | HG002complexvar | homalt | 99.5858 | 99.5565 | 99.6150 | 53.3069 | 10551 | 47 | 10092 | 39 | 36 | 92.3077 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0078 | 97.9824 | 98.0331 | 65.1766 | 1894 | 39 | 1894 | 38 | 36 | 94.7368 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.7390 | 98.1567 | 91.5513 | 36.9925 | 3834 | 72 | 3836 | 354 | 36 | 10.1695 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9677 | 98.5714 | 95.4152 | 84.7413 | 1311 | 19 | 1103 | 53 | 36 | 67.9245 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 14.5031 | 86.9565 | 7.9113 | 76.9878 | 240 | 36 | 264 | 3073 | 36 | 1.1715 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.5197 | 98.8415 | 83.4904 | 85.3580 | 2389 | 28 | 2392 | 473 | 36 | 7.6110 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 48.7545 | 54.7591 | 43.9366 | 94.6836 | 466 | 385 | 471 | 601 | 36 | 5.9900 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 57.4446 | 41.4634 | 93.4708 | 72.4562 | 561 | 792 | 544 | 38 | 36 | 94.7368 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 43.6441 | 89.1892 | 0 | 0 | 103 | 133 | 36 | 27.0677 | |
| ghariani-varprowl | SNP | ti | segdup | homalt | 99.5818 | 99.9334 | 99.2326 | 88.7647 | 7500 | 5 | 7500 | 58 | 36 | 62.0690 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m0_e0 | * | 57.3585 | 57.5758 | 57.1429 | 81.9063 | 19 | 14 | 64 | 48 | 36 | 75.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m0_e0 | het | 68.5015 | 94.1176 | 53.8462 | 81.9757 | 16 | 1 | 56 | 48 | 36 | 75.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.4953 | 98.4031 | 98.5877 | 57.4464 | 10907 | 177 | 10820 | 155 | 36 | 23.2258 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.8911 | 87.3497 | 99.1833 | 60.3693 | 22151 | 3208 | 22225 | 183 | 36 | 19.6721 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 31.6644 | 21.5926 | 59.3458 | 76.4835 | 141 | 512 | 127 | 87 | 36 | 41.3793 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 84.5678 | 88.4131 | 81.0431 | 88.8392 | 4212 | 552 | 4211 | 985 | 36 | 3.6548 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 65.4311 | 59.8361 | 72.1805 | 46.5863 | 73 | 49 | 96 | 37 | 37 | 100.0000 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 33.9862 | 95.3401 | 20.6789 | 83.3507 | 757 | 37 | 792 | 3038 | 37 | 1.2179 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 83.8207 | 76.4233 | 92.8036 | 43.9496 | 1141 | 352 | 619 | 48 | 37 | 77.0833 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m2_e0 | * | 71.5037 | 71.4286 | 71.5789 | 85.3395 | 90 | 36 | 136 | 54 | 37 | 68.5185 | |