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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12701-12750 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | * | map_l150_m1_e0 | het | 93.9997 | 95.9064 | 92.1674 | 89.8264 | 820 | 35 | 859 | 73 | 11 | 15.0685 | |
| cchapple-custom | INDEL | D1_5 | HG002complexvar | het | 99.3604 | 99.0657 | 99.6568 | 53.2015 | 20571 | 194 | 21196 | 73 | 60 | 82.1918 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.5988 | 98.6711 | 89.0226 | 42.7218 | 594 | 8 | 592 | 73 | 71 | 97.2603 | |
| ckim-dragen | SNP | tv | map_l250_m1_e0 | het | 96.1474 | 96.3626 | 95.9331 | 90.7498 | 1722 | 65 | 1722 | 73 | 4 | 5.4795 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | * | 95.2938 | 98.5261 | 92.2669 | 92.7054 | 869 | 13 | 871 | 73 | 6 | 8.2192 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m1_e0 | het | 94.7425 | 99.0358 | 90.8060 | 91.1611 | 719 | 7 | 721 | 73 | 4 | 5.4795 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.4655 | 91.2162 | 60.1093 | 74.5125 | 135 | 13 | 110 | 73 | 72 | 98.6301 | |
| ciseli-custom | INDEL | * | map_l150_m1_e0 | homalt | 63.4966 | 53.8961 | 77.2586 | 91.1399 | 249 | 213 | 248 | 73 | 53 | 72.6027 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 23.8908 | 17.7515 | 36.5217 | 59.5070 | 30 | 139 | 42 | 73 | 70 | 95.8904 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.3121 | 98.9474 | 93.8136 | 84.0303 | 1316 | 14 | 1107 | 73 | 64 | 87.6712 | |
| dgrover-gatk | SNP | * | * | homalt | 99.9839 | 99.9740 | 99.9938 | 17.2643 | 1179854 | 307 | 1179830 | 73 | 63 | 86.3014 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | het | 96.2758 | 95.7521 | 96.8053 | 90.9383 | 2209 | 98 | 2212 | 73 | 11 | 15.0685 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e1 | het | 96.2442 | 95.6466 | 96.8494 | 90.9830 | 2241 | 102 | 2244 | 73 | 11 | 15.0685 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.4635 | 97.1765 | 91.8979 | 57.1564 | 826 | 24 | 828 | 73 | 71 | 97.2603 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e1 | het | 98.9153 | 98.0846 | 99.7602 | 53.1134 | 30367 | 593 | 30370 | 73 | 6 | 8.2192 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.1297 | 97.6301 | 96.6344 | 45.5436 | 2101 | 51 | 2096 | 73 | 71 | 97.2603 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.5098 | 93.8352 | 95.1942 | 74.3325 | 1446 | 95 | 1446 | 73 | 39 | 53.4247 | |
| ndellapenna-hhga | SNP | ti | map_l100_m1_e0 | * | 99.3542 | 98.8671 | 99.8462 | 61.3943 | 47388 | 543 | 47390 | 73 | 38 | 52.0548 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | homalt | 87.7858 | 78.5523 | 99.4792 | 55.9352 | 14108 | 3852 | 13944 | 73 | 71 | 97.2603 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.3253 | 97.5410 | 91.3148 | 37.7628 | 119 | 3 | 757 | 72 | 4 | 5.5556 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 85.6095 | 92.7536 | 79.4872 | 92.6630 | 256 | 20 | 279 | 72 | 9 | 12.5000 | |
| qzeng-custom | SNP | * | map_l150_m2_e1 | homalt | 80.8266 | 68.2422 | 99.1019 | 73.2731 | 8071 | 3756 | 7945 | 72 | 72 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m2_e1 | * | 67.1787 | 55.2699 | 85.6287 | 82.9069 | 430 | 348 | 429 | 72 | 64 | 88.8889 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 48.9083 | 72.7273 | 36.8421 | 93.3913 | 32 | 12 | 42 | 72 | 2 | 2.7778 | |
| qzeng-custom | INDEL | D16_PLUS | map_l100_m0_e0 | * | 35.7447 | 85.7143 | 22.5806 | 94.7487 | 24 | 4 | 21 | 72 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | tv | map_siren | * | 99.4997 | 99.1596 | 99.8422 | 55.1910 | 45544 | 386 | 45544 | 72 | 30 | 41.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.2274 | 96.9697 | 86.1272 | 74.9275 | 448 | 14 | 447 | 72 | 72 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.9729 | 96.4912 | 84.2795 | 74.3705 | 385 | 14 | 386 | 72 | 70 | 97.2222 | |
| gduggal-snapplat | SNP | tv | segdup | het | 98.3319 | 98.0329 | 98.6327 | 95.7233 | 5183 | 104 | 5194 | 72 | 6 | 8.3333 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 54.1272 | 40.3636 | 82.1340 | 57.9332 | 333 | 492 | 331 | 72 | 71 | 98.6111 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 14.2857 | 100.0000 | 7.6923 | 89.6000 | 6 | 0 | 6 | 72 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 65.7529 | 52.8540 | 86.9801 | 38.4187 | 963 | 859 | 481 | 72 | 43 | 59.7222 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e0 | * | 96.2111 | 96.1880 | 96.2343 | 84.4528 | 1842 | 73 | 1840 | 72 | 13 | 18.0556 | |
| gduggal-snapfb | INDEL | I1_5 | segdup | * | 95.1081 | 96.7894 | 93.4842 | 94.5833 | 1025 | 34 | 1033 | 72 | 18 | 25.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 43.4048 | 30.1435 | 77.5000 | 51.4416 | 252 | 584 | 248 | 72 | 70 | 97.2222 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 54.1272 | 40.3636 | 82.1340 | 57.9332 | 333 | 492 | 331 | 72 | 71 | 98.6111 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 33.5766 | 54.7619 | 24.2105 | 97.0652 | 23 | 19 | 23 | 72 | 1 | 1.3889 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 55.5556 | 94.9343 | 0 | 0 | 90 | 72 | 8 | 11.1111 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 52.0000 | 94.9170 | 0 | 0 | 78 | 72 | 8 | 11.1111 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0403 | 91.4014 | 98.9810 | 39.0442 | 2498 | 235 | 6994 | 72 | 57 | 79.1667 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 43.4388 | 29.2157 | 84.6482 | 63.0999 | 447 | 1083 | 397 | 72 | 71 | 98.6111 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 43.4388 | 29.2157 | 84.6482 | 63.0999 | 447 | 1083 | 397 | 72 | 71 | 98.6111 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 69.8019 | 55.0659 | 95.3064 | 79.2366 | 1462 | 1193 | 1462 | 72 | 30 | 41.6667 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002complexvar | homalt | 81.9487 | 86.8512 | 77.5701 | 62.8472 | 251 | 38 | 249 | 72 | 72 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 50.2734 | 33.9647 | 96.7108 | 42.6363 | 1847 | 3591 | 2117 | 72 | 72 | 100.0000 | |
| gduggal-snapfb | INDEL | * | map_l150_m1_e0 | * | 93.3899 | 92.3019 | 94.5038 | 89.1529 | 1235 | 103 | 1238 | 72 | 21 | 29.1667 | |
| gduggal-snapfb | INDEL | * | map_l150_m2_e0 | * | 93.6073 | 92.4716 | 94.7712 | 89.9313 | 1302 | 106 | 1305 | 72 | 21 | 29.1667 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.9391 | 95.7447 | 88.4244 | 72.2445 | 585 | 26 | 550 | 72 | 67 | 93.0556 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.6186 | 98.0736 | 93.2836 | 55.1652 | 560 | 11 | 1000 | 72 | 71 | 98.6111 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.3802 | 99.4681 | 93.4783 | 60.2735 | 561 | 3 | 1032 | 72 | 70 | 97.2222 | |