PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53701-53750 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2789 | 94.7020 | 100.0000 | 44.2379 | 143 | 8 | 150 | 0 | 0 | ||
| ckim-vqsr | INDEL | I6_15 | map_siren | het | 96.7742 | 94.4056 | 99.2647 | 88.7696 | 135 | 8 | 135 | 1 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.5998 | 99.2908 | 99.9108 | 42.6598 | 1120 | 8 | 1120 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7260 | 99.8005 | 99.6515 | 49.5605 | 4003 | 8 | 4003 | 14 | 2 | 14.2857 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7064 | 96.3801 | 99.0698 | 91.1230 | 213 | 8 | 213 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 40.6780 | 27.2727 | 80.0000 | 86.4865 | 3 | 8 | 4 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | map_siren | homalt | 85.2459 | 76.4706 | 96.2963 | 87.8378 | 26 | 8 | 26 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2492 | 99.3985 | 99.1004 | 39.5833 | 1322 | 8 | 1322 | 12 | 10 | 83.3333 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m0_e0 | het | 97.5398 | 97.6812 | 97.3988 | 87.9694 | 337 | 8 | 337 | 9 | 2 | 22.2222 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 86.2069 | 75.7576 | 100.0000 | 59.3220 | 25 | 8 | 24 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 70.1195 | 57.8947 | 88.8889 | 87.5000 | 11 | 8 | 8 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D6_15 | map_l125_m1_e0 | hetalt | 73.3333 | 57.8947 | 100.0000 | 88.8889 | 11 | 8 | 8 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | map_l125_m2_e0 | hetalt | 73.3333 | 57.8947 | 100.0000 | 90.0000 | 11 | 8 | 8 | 0 | 0 | ||
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 93.8272 | 90.4762 | 97.4359 | 61.7647 | 76 | 8 | 76 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m1_e0 | homalt | 91.5888 | 85.9649 | 98.0000 | 95.0348 | 49 | 8 | 49 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.0619 | 99.3157 | 98.8095 | 62.8201 | 1161 | 8 | 1162 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l150_m2_e1 | * | 94.4860 | 90.5882 | 98.7342 | 94.0242 | 77 | 8 | 78 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.8452 | 98.0861 | 99.6161 | 43.6147 | 410 | 8 | 519 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l125_m0_e0 | hetalt | 20.0000 | 11.1111 | 100.0000 | 98.1818 | 1 | 8 | 1 | 0 | 0 | ||
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 53.3898 | 52.9412 | 53.8462 | 99.5165 | 9 | 8 | 7 | 6 | 5 | 83.3333 | |
| anovak-vg | INDEL | * | tech_badpromoters | homalt | 76.1124 | 75.7576 | 76.4706 | 47.6923 | 25 | 8 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | map_l150_m2_e0 | * | 66.6667 | 52.9412 | 90.0000 | 94.4751 | 9 | 8 | 9 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | segdup | het | 82.8571 | 78.3784 | 87.8788 | 91.3613 | 29 | 8 | 29 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 0.0000 | 42.8571 | 0.0000 | 0.0000 | 6 | 8 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l125_m1_e0 | hetalt | 0.0000 | 38.4615 | 0.0000 | 0.0000 | 5 | 8 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l250_m0_e0 | homalt | 52.6316 | 38.4615 | 83.3333 | 98.9111 | 5 | 8 | 5 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 0.0000 | 11.1111 | 0.0000 | 0.0000 | 1 | 8 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | map_l150_m0_e0 | * | 75.3769 | 75.0000 | 75.7576 | 93.5421 | 24 | 8 | 25 | 8 | 6 | 75.0000 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e0 | het | 79.4212 | 82.6087 | 76.4706 | 92.2844 | 38 | 8 | 39 | 12 | 7 | 58.3333 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e1 | het | 79.8362 | 82.9787 | 76.9231 | 92.2619 | 39 | 8 | 40 | 12 | 7 | 58.3333 | |
| anovak-vg | INDEL | D6_15 | tech_badpromoters | * | 62.0690 | 52.9412 | 75.0000 | 36.8421 | 9 | 8 | 9 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | func_cds | * | 44.4444 | 33.3333 | 66.6667 | 50.0000 | 4 | 8 | 4 | 2 | 1 | 50.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l125_m1_e0 | het | 20.0000 | 11.1111 | 100.0000 | 85.7143 | 1 | 8 | 1 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | map_l125_m2_e0 | het | 20.0000 | 11.1111 | 100.0000 | 90.9091 | 1 | 8 | 1 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | map_l125_m2_e1 | het | 20.0000 | 11.1111 | 100.0000 | 90.9091 | 1 | 8 | 1 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | HG002complexvar | het | 99.3949 | 98.7970 | 100.0000 | 64.2575 | 657 | 8 | 633 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1220 | 90.6977 | 100.0000 | 77.4869 | 78 | 8 | 86 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.7273 | 86.4407 | 100.0000 | 72.6829 | 51 | 8 | 56 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7852 | 99.3209 | 96.2963 | 73.0778 | 1170 | 8 | 1170 | 45 | 45 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m1_e0 | * | 98.3253 | 98.4190 | 98.2318 | 89.1587 | 498 | 8 | 500 | 9 | 2 | 22.2222 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m1_e0 | het | 97.6577 | 97.3244 | 97.9933 | 90.1645 | 291 | 8 | 293 | 6 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m2_e0 | * | 98.3671 | 98.4586 | 98.2759 | 90.2666 | 511 | 8 | 513 | 9 | 2 | 22.2222 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m2_e0 | het | 97.7336 | 97.4110 | 98.0583 | 91.0539 | 301 | 8 | 303 | 6 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m2_e1 | * | 98.4039 | 98.4934 | 98.3146 | 90.3068 | 523 | 8 | 525 | 9 | 2 | 22.2222 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m2_e1 | het | 97.7908 | 97.4763 | 98.1073 | 91.0880 | 309 | 8 | 311 | 6 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | * | homalt | 97.0258 | 99.8718 | 94.3376 | 54.5892 | 6231 | 8 | 6231 | 374 | 371 | 99.1979 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.4289 | 94.6309 | 96.2406 | 77.3424 | 141 | 8 | 128 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.7468 | 98.3607 | 99.1361 | 82.2265 | 480 | 8 | 459 | 4 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7497 | 99.8706 | 99.6290 | 54.7353 | 6176 | 8 | 6176 | 23 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | map_l250_m0_e0 | homalt | 98.8067 | 98.7281 | 98.8854 | 91.2693 | 621 | 8 | 621 | 7 | 5 | 71.4286 | |