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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
31351-31400 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | * | map_l150_m2_e0 | * | 97.9932 | 98.6506 | 97.3445 | 90.3934 | 1389 | 19 | 1393 | 38 | 6 | 15.7895 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m0_e0 | * | 97.6181 | 98.9919 | 96.2818 | 88.4650 | 491 | 5 | 492 | 19 | 3 | 15.7895 | |
| hfeng-pmm3 | SNP | * | map_l250_m0_e0 | * | 98.2916 | 98.3607 | 98.2226 | 92.8676 | 2100 | 35 | 2100 | 38 | 6 | 15.7895 | |
| qzeng-custom | INDEL | * | map_l100_m2_e0 | het | 83.5804 | 79.9740 | 87.5274 | 89.7430 | 1845 | 462 | 2400 | 342 | 54 | 15.7895 | |
| qzeng-custom | INDEL | * | map_l100_m2_e1 | homalt | 85.5777 | 78.8447 | 93.5680 | 81.7812 | 1010 | 271 | 1382 | 95 | 15 | 15.7895 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.3760 | 99.2368 | 99.5156 | 55.1976 | 3901 | 30 | 3903 | 19 | 3 | 15.7895 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e1 | * | 97.1606 | 95.2809 | 99.1159 | 83.1609 | 2120 | 105 | 2130 | 19 | 3 | 15.7895 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | * | 98.3998 | 97.4709 | 99.3466 | 77.4486 | 2929 | 76 | 2889 | 19 | 3 | 15.7895 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m0_e0 | het | 98.0426 | 96.3815 | 99.7620 | 61.0832 | 7964 | 299 | 7964 | 19 | 3 | 15.7895 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e1 | * | 97.6390 | 96.3525 | 98.9603 | 79.8456 | 3619 | 137 | 3617 | 38 | 6 | 15.7895 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e1 | het | 98.8973 | 99.2470 | 98.5500 | 79.7478 | 12917 | 98 | 12913 | 190 | 30 | 15.7895 | |
| cchapple-custom | INDEL | * | map_l150_m2_e0 | het | 94.0611 | 95.9161 | 92.2764 | 90.5184 | 869 | 37 | 908 | 76 | 12 | 15.7895 | |
| cchapple-custom | INDEL | * | map_l150_m2_e1 | het | 94.1271 | 95.8874 | 92.4303 | 90.5506 | 886 | 38 | 928 | 76 | 12 | 15.7895 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 18.5714 | 12.0370 | 40.6250 | 54.2857 | 13 | 95 | 13 | 19 | 3 | 15.7895 | |
| ckim-isaac | SNP | * | map_l100_m0_e0 | het | 77.3393 | 63.1643 | 99.7172 | 71.7888 | 13394 | 7811 | 13397 | 38 | 6 | 15.7895 | |
| ckim-isaac | SNP | * | map_l250_m1_e0 | * | 64.1591 | 47.3553 | 99.4475 | 90.4206 | 3420 | 3802 | 3420 | 19 | 3 | 15.7895 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 98.6818 | 98.9247 | 98.4401 | 85.0991 | 1196 | 13 | 1199 | 19 | 3 | 15.7895 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 98.6907 | 98.8854 | 98.4968 | 85.5954 | 1242 | 14 | 1245 | 19 | 3 | 15.7895 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 98.7031 | 98.8959 | 98.5110 | 85.7047 | 1254 | 14 | 1257 | 19 | 3 | 15.7895 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e0 | het | 96.2824 | 98.9244 | 93.7778 | 83.5770 | 7174 | 78 | 7174 | 476 | 75 | 15.7563 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | * | 97.0145 | 97.3908 | 96.6411 | 87.1665 | 3658 | 98 | 3654 | 127 | 20 | 15.7480 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.0456 | 96.0304 | 83.0080 | 88.0462 | 2274 | 94 | 2296 | 470 | 74 | 15.7447 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 18.7853 | 15.3926 | 24.0964 | 85.0898 | 149 | 819 | 240 | 756 | 119 | 15.7407 | |
| qzeng-custom | SNP | ti | segdup | * | 98.7450 | 98.9558 | 98.5351 | 91.7233 | 19333 | 204 | 19237 | 286 | 45 | 15.7343 | |
| hfeng-pmm3 | SNP | ti | map_l150_m2_e0 | * | 99.5024 | 99.4394 | 99.5655 | 75.5202 | 20397 | 115 | 20393 | 89 | 14 | 15.7303 | |
| hfeng-pmm1 | SNP | * | map_l150_m0_e0 | het | 98.8251 | 98.5390 | 99.1129 | 80.9036 | 7824 | 116 | 7821 | 70 | 11 | 15.7143 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.6106 | 97.3432 | 76.4021 | 67.2751 | 1319 | 36 | 2493 | 770 | 121 | 15.7143 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e0 | * | 98.8866 | 99.1651 | 98.6097 | 70.4745 | 24824 | 209 | 24824 | 350 | 55 | 15.7143 | |
| ltrigg-rtg1 | SNP | ti | map_siren | * | 99.5060 | 99.2556 | 99.7576 | 49.1435 | 99607 | 747 | 99601 | 242 | 38 | 15.7025 | |
| cchapple-custom | INDEL | * | map_l125_m0_e0 | het | 93.7970 | 95.7411 | 91.9304 | 89.7169 | 562 | 25 | 581 | 51 | 8 | 15.6863 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.7364 | 78.3970 | 97.0612 | 92.7953 | 7160 | 1973 | 7167 | 217 | 34 | 15.6682 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.7364 | 78.3970 | 97.0612 | 92.7953 | 7160 | 1973 | 7167 | 217 | 34 | 15.6682 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 91.6247 | 97.6285 | 86.3165 | 88.5095 | 1235 | 30 | 1249 | 198 | 31 | 15.6566 | |
| dgrover-gatk | SNP | * | map_l150_m0_e0 | het | 98.4616 | 98.7657 | 98.1593 | 84.6929 | 7842 | 98 | 7839 | 147 | 23 | 15.6463 | |
| qzeng-custom | INDEL | * | map_l100_m2_e0 | * | 84.2312 | 79.3934 | 89.6968 | 87.9330 | 2932 | 761 | 3787 | 435 | 68 | 15.6322 | |
| qzeng-custom | INDEL | D16_PLUS | HG002complexvar | het | 88.4674 | 95.9350 | 82.0784 | 59.1925 | 1062 | 45 | 1319 | 288 | 45 | 15.6250 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | * | 95.8895 | 95.8869 | 95.8922 | 92.8591 | 746 | 32 | 747 | 32 | 5 | 15.6250 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.3802 | 93.5166 | 99.4246 | 60.9201 | 16429 | 1139 | 16588 | 96 | 15 | 15.6250 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.7998 | 77.2097 | 99.1101 | 56.3009 | 3564 | 1052 | 3564 | 32 | 5 | 15.6250 | |
| bgallagher-sentieon | SNP | tv | map_l100_m0_e0 | * | 98.9757 | 99.3865 | 98.5682 | 71.0162 | 11016 | 68 | 11015 | 160 | 25 | 15.6250 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e0 | * | 98.9822 | 99.3659 | 98.6015 | 77.4624 | 11283 | 72 | 11281 | 160 | 25 | 15.6250 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e1 | * | 98.9952 | 99.3740 | 98.6193 | 77.4754 | 11430 | 72 | 11428 | 160 | 25 | 15.6250 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.6127 | 23.8776 | 62.8853 | 50.2149 | 117 | 373 | 510 | 301 | 47 | 15.6146 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e0 | * | 92.1174 | 87.8960 | 96.7646 | 96.1178 | 3246 | 447 | 3260 | 109 | 17 | 15.5963 | |
| gduggal-snapvard | INDEL | D1_5 | map_l250_m2_e0 | het | 74.0028 | 99.1736 | 59.0226 | 95.4854 | 120 | 1 | 157 | 109 | 17 | 15.5963 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e1 | het | 96.2978 | 98.9385 | 93.7943 | 83.6297 | 7270 | 78 | 7270 | 481 | 75 | 15.5925 | |
| ckim-isaac | SNP | * | map_l100_m1_e0 | het | 81.5197 | 68.9213 | 99.7544 | 66.2256 | 31262 | 14097 | 31269 | 77 | 12 | 15.5844 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | * | 99.2263 | 98.6673 | 99.7916 | 56.2116 | 73741 | 996 | 73738 | 154 | 24 | 15.5844 | |
| qzeng-custom | INDEL | * | map_l100_m2_e1 | * | 84.2732 | 79.4995 | 89.6568 | 87.9718 | 2986 | 770 | 3840 | 443 | 69 | 15.5756 | |
| hfeng-pmm3 | SNP | ti | map_l150_m2_e1 | * | 99.5026 | 99.4402 | 99.5651 | 75.5918 | 20607 | 116 | 20603 | 90 | 14 | 15.5556 | |