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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
351-400 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | ti | HG002complexvar | * | 96.3915 | 97.0905 | 95.7026 | 18.7897 | 493644 | 14793 | 488642 | 21942 | 5540 | 25.2484 | |
| asubramanian-gatk | SNP | tv | map_l100_m2_e0 | * | 58.0625 | 40.9300 | 99.8635 | 87.2733 | 10246 | 14787 | 10244 | 14 | 2 | 14.2857 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 4.2940 | 0.0000 | 0.0000 | 662 | 14755 | 0 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l150_m1_e0 | * | 68.1780 | 51.8769 | 99.4179 | 90.5327 | 15879 | 14730 | 15883 | 93 | 29 | 31.1828 | |
| gduggal-bwavard | SNP | ti | HG002complexvar | * | 98.2991 | 97.1039 | 99.5241 | 18.2603 | 493712 | 14725 | 485576 | 2322 | 1599 | 68.8630 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 63.5093 | 59.8218 | 67.6813 | 39.7409 | 21890 | 14702 | 30217 | 14429 | 11301 | 78.3214 | |
| asubramanian-gatk | SNP | tv | map_l100_m1_e0 | * | 57.1254 | 40.0024 | 99.8777 | 86.7426 | 9801 | 14700 | 9799 | 12 | 2 | 16.6667 | |
| asubramanian-gatk | SNP | * | map_l150_m2_e1 | het | 43.6280 | 27.9330 | 99.5796 | 95.1225 | 5688 | 14675 | 5685 | 24 | 6 | 25.0000 | |
| ckim-isaac | SNP | * | map_l150_m2_e1 | * | 70.6272 | 54.6818 | 99.7000 | 78.0346 | 17613 | 14597 | 17614 | 53 | 14 | 26.4151 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.5775 | 77.4363 | 81.8404 | 75.0483 | 49893 | 14538 | 49840 | 11059 | 10522 | 95.1442 | |
| asubramanian-gatk | SNP | * | map_l150_m2_e0 | het | 43.4711 | 27.8051 | 99.5729 | 95.1282 | 5598 | 14535 | 5595 | 24 | 6 | 25.0000 | |
| gduggal-bwaplat | SNP | ti | * | homalt | 99.0843 | 98.2012 | 99.9834 | 17.0820 | 788593 | 14445 | 788346 | 131 | 112 | 85.4962 | |
| ckim-isaac | SNP | * | map_l150_m2_e0 | * | 70.6023 | 54.6496 | 99.7079 | 77.9961 | 17407 | 14445 | 17408 | 51 | 12 | 23.5294 | |
| gduggal-bwaplat | SNP | tv | * | het | 98.5255 | 97.5640 | 99.5062 | 36.2003 | 577282 | 14414 | 577577 | 2866 | 351 | 12.2470 | |
| anovak-vg | SNP | * | * | homalt | 99.1091 | 98.7819 | 99.4384 | 16.6644 | 1165787 | 14375 | 1158439 | 6543 | 5522 | 84.3955 | |
| asubramanian-gatk | SNP | * | map_l100_m0_e0 | het | 48.7115 | 32.2235 | 99.7518 | 92.2778 | 6833 | 14372 | 6833 | 17 | 6 | 35.2941 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 56.4584 | 55.1138 | 57.8702 | 55.3114 | 17632 | 14360 | 17879 | 13016 | 10534 | 80.9312 | |
| ckim-isaac | SNP | * | map_l100_m2_e1 | het | 81.8788 | 69.4358 | 99.7550 | 67.9468 | 32564 | 14334 | 32571 | 80 | 12 | 15.0000 | |
| ciseli-custom | INDEL | * | * | homalt | 84.6742 | 88.5829 | 81.0959 | 56.4739 | 110881 | 14291 | 110644 | 25792 | 22639 | 87.7753 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | * | 58.0984 | 57.1891 | 59.0370 | 52.0780 | 19080 | 14283 | 19360 | 13433 | 12541 | 93.3596 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | * | 72.1141 | 56.5817 | 99.4011 | 87.0646 | 18582 | 14259 | 18588 | 112 | 36 | 32.1429 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 57.8592 | 55.4482 | 60.4894 | 43.6279 | 17739 | 14253 | 30010 | 19602 | 17898 | 91.3070 | |
| ckim-isaac | SNP | * | map_l100_m2_e0 | het | 81.8136 | 69.3420 | 99.7551 | 67.9608 | 32174 | 14225 | 32181 | 79 | 12 | 15.1899 | |
| gduggal-snapplat | INDEL | I1_5 | * | homalt | 83.6103 | 76.4695 | 92.2220 | 62.8436 | 46209 | 14219 | 46704 | 3939 | 356 | 9.0378 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 61.6156 | 61.1636 | 62.0744 | 51.1512 | 22381 | 14211 | 22533 | 13767 | 10331 | 75.0418 | |
| asubramanian-gatk | SNP | * | map_l150_m1_e0 | het | 41.8810 | 26.5117 | 99.6495 | 95.0572 | 5121 | 14195 | 5118 | 18 | 5 | 27.7778 | |
| gduggal-snapvard | SNP | * | HG002complexvar | het | 97.7612 | 96.9682 | 98.5672 | 22.3358 | 451386 | 14113 | 439324 | 6386 | 2268 | 35.5152 | |
| ckim-isaac | SNP | * | map_l100_m1_e0 | het | 81.5197 | 68.9213 | 99.7544 | 66.2256 | 31262 | 14097 | 31269 | 77 | 12 | 15.5844 | |
| ckim-isaac | SNP | * | map_l150_m1_e0 | * | 70.0877 | 54.0364 | 99.7046 | 76.2708 | 16540 | 14069 | 16541 | 49 | 12 | 24.4898 | |
| mlin-fermikit | SNP | ti | HG002complexvar | * | 98.2652 | 97.2431 | 99.3090 | 16.9696 | 494420 | 14017 | 494405 | 3440 | 3276 | 95.2326 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.2779 | 0.0000 | 0.0000 | 39 | 13993 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 58.9492 | 55.4636 | 62.9024 | 64.8301 | 17420 | 13988 | 17390 | 10256 | 9749 | 95.0566 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 58.9492 | 55.4636 | 62.9024 | 64.8301 | 17420 | 13988 | 17390 | 10256 | 9749 | 95.0566 | |
| ckim-isaac | SNP | tv | map_siren | * | 81.9877 | 69.5646 | 99.8126 | 55.0084 | 31951 | 13979 | 31956 | 60 | 25 | 41.6667 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.6271 | 0.0000 | 0.0000 | 88 | 13944 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.7198 | 0.0000 | 0.0000 | 101 | 13931 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9251 | 78.3877 | 83.6323 | 72.4014 | 50506 | 13925 | 50171 | 9819 | 9240 | 94.1033 | |
| jpowers-varprowl | SNP | * | * | * | 99.5004 | 99.5447 | 99.4561 | 23.3348 | 3040706 | 13908 | 3041157 | 16632 | 2670 | 16.0534 | |
| ciseli-custom | SNP | * | map_siren | het | 87.4519 | 84.7172 | 90.3691 | 62.2108 | 77085 | 13906 | 76849 | 8190 | 211 | 2.5763 | |
| mlin-fermikit | SNP | tv | * | het | 98.7020 | 97.6537 | 99.7731 | 18.7114 | 577821 | 13883 | 577760 | 1314 | 14 | 1.0655 | |
| ckim-vqsr | SNP | ti | map_siren | homalt | 77.6182 | 63.4297 | 99.9834 | 60.5065 | 24050 | 13866 | 24044 | 4 | 4 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 59.9738 | 55.8902 | 64.7011 | 63.2619 | 17554 | 13854 | 17358 | 9470 | 8822 | 93.1573 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 59.9738 | 55.8902 | 64.7011 | 63.2619 | 17554 | 13854 | 17358 | 9470 | 8822 | 93.1573 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.2688 | 0.0000 | 0.0000 | 37 | 13727 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | * | * | homalt | 99.3703 | 98.8374 | 99.9089 | 19.1469 | 1166442 | 13720 | 1166214 | 1063 | 359 | 33.7723 | |
| ckim-vqsr | SNP | tv | map_siren | * | 82.2625 | 70.1676 | 99.3954 | 75.7194 | 32228 | 13702 | 32221 | 196 | 7 | 3.5714 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.6030 | 0.0000 | 0.0000 | 83 | 13681 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_siren | * | 88.0035 | 90.6441 | 85.5124 | 59.7358 | 132547 | 13681 | 130863 | 22171 | 5290 | 23.8600 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e1 | * | 83.7577 | 72.3674 | 99.4034 | 80.9971 | 35811 | 13674 | 35822 | 215 | 67 | 31.1628 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.6902 | 0.0000 | 0.0000 | 95 | 13669 | 0 | 0 | 0 | ||