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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79251-79300 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | ti | map_l250_m0_e0 | het | 49.4382 | 32.9764 | 98.7179 | 98.7999 | 308 | 626 | 308 | 4 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.6110 | 52.5360 | 98.8604 | 77.0138 | 694 | 627 | 694 | 8 | 6 | 75.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 90.7855 | 83.8319 | 98.9970 | 73.1888 | 3251 | 627 | 3257 | 33 | 8 | 24.2424 | |
| gduggal-bwafb | SNP | tv | HG002complexvar | * | 99.7871 | 99.7453 | 99.8289 | 23.3366 | 245528 | 627 | 245605 | 421 | 174 | 41.3302 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 33.8099 | 25.0000 | 52.2078 | 71.4603 | 209 | 627 | 201 | 184 | 169 | 91.8478 | |
| cchapple-custom | INDEL | I1_5 | * | hetalt | 0.0000 | 94.3993 | 0.0000 | 0.0000 | 10568 | 627 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 3.3846 | 0.0000 | 0.0000 | 22 | 628 | 0 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1804 | 98.6259 | 99.7411 | 70.8758 | 45074 | 628 | 45075 | 117 | 14 | 11.9658 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1804 | 98.6259 | 99.7411 | 70.8758 | 45074 | 628 | 45075 | 117 | 14 | 11.9658 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2978 | 94.0048 | 98.7055 | 32.8581 | 9847 | 628 | 10599 | 139 | 132 | 94.9640 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 80.0445 | 73.9527 | 87.2300 | 54.9427 | 1783 | 628 | 1817 | 266 | 219 | 82.3308 | |
| mlin-fermikit | INDEL | D6_15 | * | het | 90.4589 | 94.5825 | 86.6799 | 51.7766 | 10964 | 628 | 10952 | 1683 | 1653 | 98.2175 | |
| gduggal-bwaplat | INDEL | * | map_l150_m2_e1 | * | 71.8972 | 56.3586 | 99.2656 | 96.0740 | 811 | 628 | 811 | 6 | 1 | 16.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 67.9468 | 52.3520 | 96.7742 | 75.1654 | 690 | 628 | 690 | 23 | 22 | 95.6522 | |
| raldana-dualsentieon | INDEL | D1_5 | * | hetalt | 96.8333 | 93.8702 | 99.9896 | 62.1760 | 9617 | 628 | 9660 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | HG002compoundhet | hetalt | 96.8240 | 93.8528 | 99.9896 | 57.7055 | 9588 | 628 | 9588 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_siren | * | 99.5640 | 99.5698 | 99.5582 | 54.3006 | 145599 | 629 | 145576 | 646 | 30 | 4.6440 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 19.7704 | 0.0000 | 0.0000 | 155 | 629 | 0 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | HG002compoundhet | * | 95.0754 | 92.8327 | 97.4292 | 36.3885 | 8147 | 629 | 8148 | 215 | 212 | 98.6047 | |
| gduggal-bwaplat | INDEL | D16_PLUS | * | hetalt | 80.2709 | 67.4599 | 99.0881 | 50.5635 | 1304 | 629 | 1304 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 80.2465 | 67.4262 | 99.0868 | 50.5085 | 1302 | 629 | 1302 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 80.2465 | 67.4262 | 99.0868 | 50.5085 | 1302 | 629 | 1302 | 12 | 11 | 91.6667 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.3165 | 0.0000 | 0.0000 | 2 | 630 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3105 | 97.4328 | 99.2041 | 31.5728 | 23910 | 630 | 24805 | 199 | 188 | 94.4724 | |
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9045 | 95.9136 | 99.9799 | 60.6514 | 14787 | 630 | 14905 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | het | 89.3113 | 96.7385 | 82.9433 | 83.9813 | 18686 | 630 | 18464 | 3797 | 256 | 6.7422 | |
| ltrigg-rtg2 | SNP | * | map_l125_m0_e0 | * | 98.2838 | 96.7501 | 99.8669 | 59.4717 | 18755 | 630 | 18753 | 25 | 4 | 16.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7839 | 96.9412 | 98.6414 | 47.7167 | 19966 | 630 | 19967 | 275 | 271 | 98.5455 | |
| cchapple-custom | INDEL | D1_5 | HG002compoundhet | * | 96.3466 | 94.8427 | 97.8989 | 66.1292 | 11604 | 631 | 12627 | 271 | 261 | 96.3100 | |
| ciseli-custom | INDEL | D1_5 | map_siren | * | 83.6317 | 82.1196 | 85.2005 | 84.5008 | 2898 | 631 | 2890 | 502 | 233 | 46.4143 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.1401 | 80.0632 | 98.0294 | 59.0247 | 2534 | 631 | 2537 | 51 | 48 | 94.1176 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.1378 | 44.2087 | 94.0120 | 60.5667 | 500 | 631 | 942 | 60 | 57 | 95.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4179 | 97.9487 | 96.8928 | 71.1401 | 30130 | 631 | 30123 | 966 | 497 | 51.4493 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.3347 | 93.7357 | 96.9893 | 65.2412 | 9442 | 631 | 9310 | 289 | 255 | 88.2353 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 1.5601 | 0.0000 | 0.0000 | 10 | 631 | 0 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.9199 | 95.6831 | 98.1890 | 62.4288 | 13986 | 631 | 13609 | 251 | 218 | 86.8526 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 4.0971 | 0.0000 | 0.0000 | 27 | 632 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 4.0971 | 0.0000 | 0.0000 | 27 | 632 | 0 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5054 | 94.3089 | 98.8067 | 30.3644 | 10473 | 632 | 11178 | 135 | 126 | 93.3333 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.5612 | 98.0245 | 99.1037 | 50.2646 | 31360 | 632 | 31292 | 283 | 258 | 91.1661 | |
| qzeng-custom | INDEL | * | HG002complexvar | hetalt | 90.0705 | 82.9143 | 98.5786 | 66.1860 | 3067 | 632 | 1179 | 17 | 13 | 76.4706 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.8660 | 97.7360 | 97.9964 | 54.8200 | 27326 | 633 | 27341 | 559 | 392 | 70.1252 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7796 | 92.4607 | 83.5496 | 48.0211 | 7763 | 633 | 7725 | 1521 | 1474 | 96.9099 | |
| gduggal-snapvard | SNP | ti | map_l125_m1_e0 | het | 91.5438 | 96.5345 | 87.0437 | 81.1544 | 17633 | 633 | 17501 | 2605 | 206 | 7.9079 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | * | 95.8880 | 94.8263 | 96.9738 | 65.9095 | 11602 | 633 | 11600 | 362 | 359 | 99.1713 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1256 | 89.5940 | 96.9471 | 61.4582 | 5450 | 633 | 5335 | 168 | 156 | 92.8571 | |
| hfeng-pmm1 | INDEL | I6_15 | HG002compoundhet | * | 94.9235 | 92.7871 | 97.1606 | 36.4711 | 8143 | 633 | 8144 | 238 | 235 | 98.7395 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 12.3870 | 7.8603 | 29.2079 | 60.1578 | 54 | 633 | 59 | 143 | 46 | 32.1678 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.8012 | 88.8400 | 99.3492 | 39.7743 | 5047 | 634 | 5038 | 33 | 25 | 75.7576 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.7981 | 89.6100 | 78.6942 | 72.7931 | 5468 | 634 | 5496 | 1488 | 1452 | 97.5806 | |