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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42101-42150 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.5172 | 82.6667 | 88.5714 | 44.4444 | 62 | 13 | 62 | 8 | 5 | 62.5000 | |
| ckim-isaac | INDEL | I16_PLUS | HG002complexvar | hetalt | 38.7208 | 24.7761 | 88.5714 | 62.2302 | 83 | 252 | 93 | 12 | 10 | 83.3333 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4878 | 98.9848 | 88.5693 | 60.4017 | 1170 | 12 | 1170 | 151 | 149 | 98.6755 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.8949 | 85.2839 | 88.5680 | 60.6534 | 736 | 127 | 736 | 95 | 92 | 96.8421 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e1 | het | 93.1209 | 98.1679 | 88.5675 | 92.2930 | 1929 | 36 | 1929 | 249 | 34 | 13.6546 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e1 | het | 93.2098 | 98.3701 | 88.5639 | 83.4663 | 10381 | 172 | 10354 | 1337 | 65 | 4.8616 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 92.4964 | 96.7963 | 88.5622 | 52.1231 | 5499 | 182 | 5482 | 708 | 693 | 97.8814 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | het | 91.9260 | 95.5556 | 88.5621 | 57.3816 | 387 | 18 | 271 | 35 | 34 | 97.1429 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e0 | het | 93.5024 | 99.0272 | 88.5615 | 93.0997 | 509 | 5 | 511 | 66 | 4 | 6.0606 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 93.4933 | 99.0074 | 88.5609 | 87.9481 | 1197 | 12 | 1200 | 155 | 10 | 6.4516 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 70.1864 | 58.1267 | 88.5602 | 59.5371 | 1266 | 912 | 1347 | 174 | 129 | 74.1379 | |
| cchapple-custom | INDEL | * | map_l250_m2_e1 | het | 91.3456 | 94.3128 | 88.5593 | 96.0927 | 199 | 12 | 209 | 27 | 2 | 7.4074 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e0 | het | 93.1051 | 98.1443 | 88.5581 | 92.2231 | 1904 | 36 | 1904 | 246 | 34 | 13.8211 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.4686 | 92.4642 | 88.5573 | 75.8297 | 42258 | 3444 | 42999 | 5556 | 1706 | 30.7055 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.4686 | 92.4642 | 88.5573 | 75.8297 | 42258 | 3444 | 42999 | 5556 | 1706 | 30.7055 | |
| ciseli-custom | SNP | ti | map_l150_m2_e0 | homalt | 87.0824 | 85.6618 | 88.5509 | 72.6120 | 6524 | 1092 | 6520 | 843 | 689 | 81.7319 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 76.0643 | 66.6667 | 88.5463 | 95.7295 | 2 | 1 | 804 | 104 | 78 | 75.0000 | |
| mlin-fermikit | INDEL | D6_15 | segdup | het | 89.9018 | 91.3043 | 88.5417 | 91.7241 | 84 | 8 | 85 | 11 | 10 | 90.9091 | |
| mlin-fermikit | SNP | ti | map_l125_m1_e0 | * | 63.1485 | 49.0745 | 88.5410 | 56.6927 | 14396 | 14939 | 14395 | 1863 | 1654 | 88.7815 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 49.0771 | 33.9479 | 88.5320 | 66.3182 | 5671 | 11034 | 5705 | 739 | 624 | 84.4384 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 49.0771 | 33.9479 | 88.5320 | 66.3182 | 5671 | 11034 | 5705 | 739 | 624 | 84.4384 | |
| ciseli-custom | SNP | ti | map_l150_m2_e1 | homalt | 87.0667 | 85.6493 | 88.5319 | 72.6293 | 6589 | 1104 | 6585 | 853 | 699 | 81.9461 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m1_e0 | * | 92.4713 | 96.7831 | 88.5274 | 88.5445 | 1053 | 35 | 1034 | 134 | 19 | 14.1791 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.0966 | 87.6813 | 88.5158 | 38.7217 | 21517 | 3023 | 21589 | 2801 | 2559 | 91.3602 | |
| gduggal-snapvard | INDEL | I1_5 | map_siren | * | 90.0863 | 91.7138 | 88.5156 | 83.2677 | 2756 | 249 | 2898 | 376 | 184 | 48.9362 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | het | 93.0021 | 97.9685 | 88.5150 | 85.7521 | 19724 | 409 | 19491 | 2529 | 126 | 4.9822 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 64.8336 | 51.1501 | 88.5122 | 95.7847 | 467 | 446 | 470 | 61 | 8 | 13.1148 | |
| cchapple-custom | INDEL | * | map_l250_m2_e0 | het | 91.3070 | 94.2857 | 88.5106 | 96.0027 | 198 | 12 | 208 | 27 | 2 | 7.4074 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 71.9626 | 60.6299 | 88.5057 | 86.8976 | 77 | 50 | 77 | 10 | 2 | 20.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.1694 | 82.0755 | 88.5057 | 59.1549 | 87 | 19 | 462 | 60 | 43 | 71.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.1243 | 93.9024 | 88.5057 | 75.9669 | 77 | 5 | 77 | 10 | 10 | 100.0000 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9723 | 97.9176 | 88.5025 | 64.8041 | 2163 | 46 | 2163 | 281 | 274 | 97.5089 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.9624 | 97.8970 | 88.5014 | 84.9075 | 931 | 20 | 939 | 122 | 1 | 0.8197 | |
| ciseli-custom | SNP | * | map_l150_m2_e1 | homalt | 86.5594 | 84.7045 | 88.4973 | 73.1841 | 10018 | 1809 | 9994 | 1299 | 1047 | 80.6005 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 19.7111 | 11.0907 | 88.4956 | 74.5925 | 302 | 2421 | 400 | 52 | 46 | 88.4615 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e0 | het | 93.1678 | 98.3624 | 88.4944 | 83.4152 | 10271 | 171 | 10245 | 1332 | 64 | 4.8048 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 66.2142 | 52.8967 | 88.4937 | 95.5535 | 420 | 374 | 423 | 55 | 7 | 12.7273 | |
| ciseli-custom | SNP | * | map_l150_m2_e0 | homalt | 86.5638 | 84.7166 | 88.4932 | 73.1740 | 9911 | 1788 | 9890 | 1286 | 1036 | 80.5599 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.7361 | 97.4125 | 88.4882 | 79.5170 | 640 | 17 | 638 | 83 | 78 | 93.9759 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.6669 | 99.5017 | 88.4786 | 52.7565 | 599 | 3 | 599 | 78 | 77 | 98.7179 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.6669 | 99.5017 | 88.4786 | 52.4912 | 599 | 3 | 599 | 78 | 77 | 98.7179 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 81.5043 | 75.5582 | 88.4663 | 84.8513 | 643 | 208 | 721 | 94 | 7 | 7.4468 | |
| gduggal-bwavard | INDEL | D1_5 | * | het | 93.4417 | 99.0111 | 88.4655 | 62.3753 | 86708 | 866 | 85823 | 11190 | 9864 | 88.1501 | |
| gduggal-snapfb | INDEL | * | map_l250_m0_e0 | het | 87.6190 | 86.7925 | 88.4615 | 96.4817 | 46 | 7 | 46 | 6 | 1 | 16.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l250_m0_e0 | * | 93.8776 | 100.0000 | 88.4615 | 97.3537 | 46 | 0 | 46 | 6 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D6_15 | map_l150_m1_e0 | * | 85.9418 | 83.5616 | 88.4615 | 94.3723 | 61 | 12 | 69 | 9 | 3 | 33.3333 | |
| mlin-fermikit | INDEL | I6_15 | map_l100_m1_e0 | het | 81.9153 | 76.2712 | 88.4615 | 80.2281 | 45 | 14 | 46 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I6_15 | map_l150_m2_e1 | * | 86.7925 | 85.1852 | 88.4615 | 96.5517 | 23 | 4 | 23 | 3 | 1 | 33.3333 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 80.7395 | 74.2574 | 88.4615 | 92.0408 | 75 | 26 | 69 | 9 | 3 | 33.3333 | |
| ckim-dragen | INDEL | I1_5 | map_l250_m0_e0 | * | 92.0000 | 95.8333 | 88.4615 | 97.8862 | 23 | 1 | 23 | 3 | 1 | 33.3333 | |