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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76051-76100 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | * | map_l125_m0_e0 | het | 75.2621 | 60.9365 | 98.3935 | 91.9254 | 7717 | 4947 | 7717 | 126 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.6722 | 83.5938 | 92.1690 | 57.0360 | 1498 | 294 | 1483 | 126 | 81 | 64.2857 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.1912 | 88.4459 | 96.2678 | 41.3787 | 3261 | 426 | 3250 | 126 | 83 | 65.8730 | |
| ckim-vqsr | SNP | tv | map_l125_m1_e0 | het | 80.4152 | 68.0822 | 98.2049 | 89.2490 | 6894 | 3232 | 6893 | 126 | 1 | 0.7937 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7153 | 99.8632 | 97.5936 | 51.6484 | 5110 | 7 | 5110 | 126 | 125 | 99.2063 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8151 | 99.8240 | 97.8265 | 57.8124 | 5671 | 10 | 5671 | 126 | 125 | 99.2063 | |
| egarrison-hhga | SNP | tv | HG002complexvar | * | 99.7884 | 99.6287 | 99.9487 | 21.8626 | 245238 | 914 | 245267 | 126 | 78 | 61.9048 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 58.9260 | 45.7207 | 82.8571 | 79.6003 | 609 | 723 | 609 | 126 | 21 | 16.6667 | |
| gduggal-bwaplat | SNP | ti | HG002complexvar | homalt | 98.4485 | 97.0077 | 99.9328 | 19.1570 | 187674 | 5789 | 187425 | 126 | 109 | 86.5079 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.8753 | 95.0578 | 85.2286 | 76.3056 | 904 | 47 | 727 | 126 | 44 | 34.9206 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 86.1043 | 94.9187 | 78.7879 | 57.8125 | 467 | 25 | 468 | 126 | 118 | 93.6508 | |
| gduggal-bwavard | INDEL | C6_15 | * | het | 73.0769 | 100.0000 | 57.5758 | 94.9772 | 7 | 0 | 171 | 126 | 30 | 23.8095 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.4490 | 98.2824 | 80.4044 | 77.2309 | 515 | 9 | 517 | 126 | 19 | 15.0794 | |
| ckim-dragen | INDEL | * | map_l100_m2_e0 | * | 96.9907 | 97.3734 | 96.6111 | 87.1158 | 3596 | 97 | 3592 | 126 | 19 | 15.0794 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.1575 | 94.0810 | 96.2589 | 56.4633 | 3020 | 190 | 3242 | 126 | 118 | 93.6508 | |
| cchapple-custom | INDEL | I6_15 | * | het | 98.6365 | 97.9268 | 99.3566 | 49.5505 | 9825 | 208 | 19457 | 126 | 91 | 72.2222 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.4471 | 27.4775 | 46.1538 | 56.0976 | 61 | 161 | 108 | 126 | 89 | 70.6349 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 0.0000 | 0.0000 | 7.3529 | 85.3132 | 0 | 0 | 10 | 126 | 4 | 3.1746 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 0.0000 | 0.0000 | 7.3529 | 85.0549 | 0 | 0 | 10 | 126 | 4 | 3.1746 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 49.0421 | 92.7536 | 33.3333 | 92.3171 | 64 | 5 | 63 | 126 | 5 | 3.9683 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | het | 79.5622 | 74.4589 | 85.4167 | 95.3345 | 688 | 236 | 738 | 126 | 19 | 15.0794 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 50.1596 | 42.9630 | 60.2524 | 58.3990 | 58 | 77 | 191 | 126 | 19 | 15.0794 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 51.6683 | 38.0989 | 80.2508 | 24.4970 | 501 | 814 | 512 | 126 | 126 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | het | 80.9130 | 78.6885 | 83.2669 | 93.4516 | 624 | 169 | 627 | 126 | 3 | 2.3810 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | * | 70.5188 | 55.3329 | 97.1931 | 96.2932 | 4363 | 3522 | 4363 | 126 | 10 | 7.9365 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.2760 | 32.9738 | 62.9412 | 68.5185 | 214 | 435 | 214 | 126 | 91 | 72.2222 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.6965 | 89.5833 | 83.9898 | 89.6733 | 645 | 75 | 661 | 126 | 8 | 6.3492 | |
| ltrigg-rtg2 | INDEL | * | * | hetalt | 97.1063 | 94.8330 | 99.4912 | 68.4092 | 23933 | 1304 | 24639 | 126 | 124 | 98.4127 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | homalt | 83.7803 | 99.6960 | 72.2467 | 88.6301 | 328 | 1 | 328 | 126 | 125 | 99.2063 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5866 | 99.8768 | 99.2982 | 57.0448 | 17829 | 22 | 17828 | 126 | 5 | 3.9683 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | * | 97.0316 | 96.1110 | 97.9699 | 70.7650 | 6129 | 248 | 6129 | 127 | 100 | 78.7402 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.8667 | 97.9695 | 90.0936 | 51.1619 | 1158 | 24 | 1155 | 127 | 117 | 92.1260 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.9887 | 87.7705 | 88.2080 | 78.0159 | 933 | 130 | 950 | 127 | 70 | 55.1181 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 31.5326 | 23.3410 | 48.5830 | 48.6486 | 102 | 335 | 120 | 127 | 95 | 74.8031 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.5378 | 41.1765 | 46.1864 | 59.0278 | 21 | 30 | 109 | 127 | 107 | 84.2520 | |
| ckim-gatk | SNP | * | map_l250_m2_e0 | * | 70.6281 | 55.4724 | 97.1784 | 96.2246 | 4374 | 3511 | 4374 | 127 | 10 | 7.8740 | |
| ckim-gatk | SNP | * | map_l250_m2_e0 | het | 73.8651 | 59.9923 | 96.0839 | 96.7509 | 3116 | 2078 | 3116 | 127 | 10 | 7.8740 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.5522 | 92.4908 | 79.5820 | 75.9660 | 505 | 41 | 495 | 127 | 74 | 58.2677 | |
| ciseli-custom | SNP | tv | segdup | homalt | 97.7133 | 99.2897 | 96.1862 | 90.1152 | 3215 | 23 | 3203 | 127 | 72 | 56.6929 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | * | 97.0145 | 97.3908 | 96.6411 | 87.1665 | 3658 | 98 | 3654 | 127 | 20 | 15.7480 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9552 | 95.8879 | 96.0225 | 64.6127 | 3078 | 132 | 3066 | 127 | 123 | 96.8504 | |
| ckim-isaac | INDEL | I1_5 | * | hetalt | 89.8867 | 82.5636 | 98.6351 | 45.1097 | 9243 | 1952 | 9178 | 127 | 112 | 88.1890 | |
| ckim-vqsr | SNP | tv | map_l125_m1_e0 | * | 69.0966 | 53.2030 | 98.5313 | 88.9389 | 8521 | 7495 | 8520 | 127 | 1 | 0.7874 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | het | 80.8052 | 68.6171 | 98.2581 | 89.8954 | 7165 | 3277 | 7164 | 127 | 1 | 0.7874 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e1 | het | 80.9165 | 68.7672 | 98.2798 | 89.9018 | 7257 | 3296 | 7256 | 127 | 1 | 0.7874 | |
| dgrover-gatk | SNP | tv | map_l125_m1_e0 | het | 99.0398 | 99.3285 | 98.7528 | 76.5217 | 10058 | 68 | 10056 | 127 | 22 | 17.3228 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e0 | het | 99.0688 | 99.3488 | 98.7904 | 77.6779 | 10374 | 68 | 10372 | 127 | 22 | 17.3228 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | het | 99.0786 | 99.3556 | 98.8030 | 77.7194 | 10485 | 68 | 10483 | 127 | 22 | 17.3228 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.5209 | 83.4104 | 92.0575 | 35.5502 | 1443 | 287 | 1472 | 127 | 115 | 90.5512 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0802 | 98.5775 | 99.5880 | 67.8801 | 30700 | 443 | 30701 | 127 | 3 | 2.3622 | |