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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
54501-54550 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.6645 | 97.8723 | 97.4576 | 62.7466 | 460 | 10 | 460 | 12 | 3 | 25.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.0220 | 94.6281 | 97.4576 | 65.7475 | 229 | 13 | 230 | 6 | 3 | 50.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.8776 | 90.5512 | 97.4576 | 75.5694 | 115 | 12 | 115 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.8776 | 90.5512 | 97.4576 | 76.1616 | 115 | 12 | 115 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 66.8472 | 50.8696 | 97.4576 | 61.1842 | 117 | 113 | 115 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.8373 | 92.3541 | 97.4576 | 76.1616 | 459 | 38 | 460 | 12 | 12 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e0 | * | 94.2623 | 91.2698 | 97.4576 | 92.5174 | 115 | 11 | 115 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.8914 | 94.3741 | 97.4582 | 84.3416 | 1342 | 80 | 1342 | 35 | 25 | 71.4286 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0184 | 98.5852 | 97.4582 | 45.8333 | 1742 | 25 | 1457 | 38 | 11 | 28.9474 | |
| gduggal-bwafb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.4793 | 99.5219 | 97.4583 | 69.5878 | 17484 | 84 | 17523 | 457 | 79 | 17.2867 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m2_e0 | * | 90.1218 | 83.8120 | 97.4590 | 87.8583 | 1605 | 310 | 1841 | 48 | 35 | 72.9167 | |
| ghariani-varprowl | INDEL | I1_5 | * | homalt | 94.4302 | 91.5834 | 97.4597 | 39.6857 | 55342 | 5086 | 55284 | 1441 | 928 | 64.3997 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002complexvar | het | 84.5433 | 74.6497 | 97.4600 | 66.9103 | 1758 | 597 | 1765 | 46 | 16 | 34.7826 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m0_e0 | * | 98.0810 | 98.7097 | 97.4603 | 88.9124 | 306 | 4 | 307 | 8 | 2 | 25.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1835 | 98.9169 | 97.4610 | 70.8771 | 17626 | 193 | 17235 | 449 | 399 | 88.8641 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7147 | 100.0000 | 97.4619 | 47.3262 | 192 | 0 | 192 | 5 | 4 | 80.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2379 | 97.0149 | 97.4619 | 86.3856 | 195 | 6 | 192 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m0_e0 | homalt | 98.4615 | 99.4819 | 97.4619 | 93.6122 | 192 | 1 | 192 | 5 | 3 | 60.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m0_e0 | homalt | 98.4615 | 99.4819 | 97.4619 | 93.5494 | 192 | 1 | 192 | 5 | 3 | 60.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7147 | 100.0000 | 97.4619 | 47.3262 | 192 | 0 | 192 | 5 | 4 | 80.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.9225 | 92.5121 | 97.4619 | 73.8553 | 383 | 31 | 384 | 10 | 8 | 80.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7147 | 100.0000 | 97.4619 | 47.3262 | 192 | 0 | 192 | 5 | 4 | 80.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | * | 80.0329 | 67.8918 | 97.4620 | 88.1625 | 20781 | 9828 | 20775 | 541 | 41 | 7.5786 | |
| jli-custom | INDEL | I6_15 | HG002compoundhet | * | 95.9804 | 94.5419 | 97.4633 | 35.3700 | 8297 | 479 | 8299 | 216 | 208 | 96.2963 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 61.4597 | 44.8804 | 97.4636 | 72.8689 | 2665 | 3273 | 4957 | 129 | 121 | 93.7984 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e1 | * | 97.9994 | 98.5407 | 97.4640 | 90.7582 | 1418 | 21 | 1422 | 37 | 8 | 21.6216 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.9681 | 98.4772 | 97.4643 | 37.2197 | 2716 | 42 | 2729 | 71 | 52 | 73.2394 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | het | 97.3464 | 97.2285 | 97.4646 | 85.8260 | 1298 | 37 | 1307 | 34 | 9 | 26.4706 | |
| gduggal-bwafb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.5779 | 93.7628 | 97.4647 | 70.7003 | 88558 | 5891 | 94531 | 2459 | 2226 | 90.5246 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e0 | * | 88.3689 | 80.8253 | 97.4657 | 81.7790 | 20233 | 4800 | 20229 | 526 | 16 | 3.0418 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e1 | * | 80.8313 | 69.0469 | 97.4662 | 88.8350 | 22240 | 9970 | 22234 | 578 | 42 | 7.2664 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.5433 | 76.2190 | 97.4669 | 52.9093 | 7894 | 2463 | 7888 | 205 | 168 | 81.9512 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1392 | 98.8202 | 97.4675 | 78.5775 | 4188 | 50 | 4195 | 109 | 1 | 0.9174 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_siren | hetalt | 95.1069 | 92.8571 | 97.4684 | 93.2536 | 78 | 6 | 77 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_siren | hetalt | 95.1069 | 92.8571 | 97.4684 | 93.1245 | 78 | 6 | 77 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | * | map_l150_m0_e0 | homalt | 95.6522 | 93.9024 | 97.4684 | 94.4347 | 154 | 10 | 154 | 4 | 4 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | map_l100_m2_e1 | het | 91.7507 | 86.6667 | 97.4684 | 83.5588 | 117 | 18 | 154 | 4 | 1 | 25.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 98.7179 | 100.0000 | 97.4684 | 89.0733 | 15 | 0 | 231 | 6 | 4 | 66.6667 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 98.7179 | 100.0000 | 97.4684 | 89.0733 | 15 | 0 | 231 | 6 | 4 | 66.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 94.4785 | 91.6667 | 97.4684 | 62.0192 | 77 | 7 | 77 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7711 | 88.5057 | 97.4684 | 84.9810 | 77 | 10 | 77 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.6131 | 93.8272 | 97.4684 | 73.9274 | 76 | 5 | 77 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | * | tech_badpromoters | het | 98.7179 | 100.0000 | 97.4684 | 44.7552 | 77 | 0 | 77 | 2 | 0 | 0.0000 | |
| cchapple-custom | SNP | * | tech_badpromoters | * | 98.0932 | 98.7261 | 97.4684 | 50.9317 | 155 | 2 | 154 | 4 | 1 | 25.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7711 | 88.5057 | 97.4684 | 85.1504 | 77 | 10 | 77 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | het | 92.2588 | 87.5769 | 97.4696 | 81.5171 | 39724 | 5635 | 39713 | 1031 | 76 | 7.3715 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | * | 76.5382 | 63.0075 | 97.4697 | 89.2235 | 12214 | 7171 | 12211 | 317 | 31 | 9.7792 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7263 | 88.4232 | 97.4697 | 64.7401 | 886 | 116 | 886 | 23 | 20 | 86.9565 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | het | 97.3404 | 97.2112 | 97.4700 | 92.1200 | 1464 | 42 | 1464 | 38 | 23 | 60.5263 | |
| jli-custom | INDEL | * | map_l150_m0_e0 | * | 97.4708 | 97.4708 | 97.4708 | 91.2896 | 501 | 13 | 501 | 13 | 4 | 30.7692 | |