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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55301-55350 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3181 | 99.2492 | 99.3870 | 72.2871 | 1322 | 10 | 1297 | 8 | 6 | 75.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2083 | 99.4128 | 99.0047 | 74.3003 | 1693 | 10 | 1691 | 17 | 5 | 29.4118 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7373 | 98.7952 | 98.6795 | 85.8454 | 820 | 10 | 822 | 11 | 2 | 18.1818 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | het | 98.1477 | 97.9424 | 98.3539 | 86.9705 | 476 | 10 | 478 | 8 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e0 | * | 98.7770 | 98.8331 | 98.7209 | 87.0110 | 847 | 10 | 849 | 11 | 2 | 18.1818 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e0 | het | 98.1887 | 97.9879 | 98.3903 | 88.1186 | 487 | 10 | 489 | 8 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e1 | * | 98.7952 | 98.8506 | 98.7400 | 87.1353 | 860 | 10 | 862 | 11 | 2 | 18.1818 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e1 | het | 98.2280 | 98.0315 | 98.4252 | 88.1750 | 498 | 10 | 500 | 8 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.0000 | 93.0070 | 97.0803 | 92.6304 | 133 | 10 | 133 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5898 | 99.1830 | 100.0000 | 59.0142 | 1214 | 10 | 1214 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7720 | 99.5863 | 99.9585 | 72.8523 | 2407 | 10 | 2407 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1461 | 99.8517 | 98.4503 | 43.0996 | 6734 | 10 | 6734 | 106 | 1 | 0.9434 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.5122 | 99.2515 | 99.7743 | 48.6278 | 1326 | 10 | 1326 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2366 | 98.8304 | 99.6462 | 50.2931 | 845 | 10 | 845 | 3 | 0 | 0.0000 | |
| cchapple-custom | INDEL | * | HG002compoundhet | homalt | 57.1228 | 98.5423 | 40.2182 | 82.1359 | 676 | 10 | 516 | 767 | 761 | 99.2177 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9258 | 99.8517 | 100.0000 | 35.0718 | 6735 | 10 | 6735 | 0 | 0 | ||
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.0000 | 93.0070 | 97.0803 | 92.6620 | 133 | 10 | 133 | 4 | 3 | 75.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5490 | 99.1830 | 99.9177 | 59.0909 | 1214 | 10 | 1214 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_l250_m0_e0 | * | 82.9268 | 87.1795 | 79.0698 | 99.4172 | 68 | 10 | 68 | 18 | 1 | 5.5556 | |
| asubramanian-gatk | INDEL | * | segdup | hetalt | 95.6238 | 92.3077 | 99.1870 | 94.8211 | 120 | 10 | 122 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.2904 | 97.2376 | 84.2697 | 84.6816 | 352 | 10 | 225 | 42 | 41 | 97.6190 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.4760 | 97.5062 | 99.4652 | 82.0365 | 391 | 10 | 372 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.4555 | 96.9512 | 97.9651 | 38.5714 | 318 | 10 | 337 | 7 | 5 | 71.4286 | |
| anovak-vg | INDEL | * | map_l250_m0_e0 | homalt | 64.2857 | 60.0000 | 69.2308 | 98.0168 | 15 | 10 | 18 | 8 | 8 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | map_l100_m0_e0 | het | 58.0645 | 47.3684 | 75.0000 | 90.6977 | 9 | 10 | 9 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e0 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 5 | 10 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 5 | 10 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 27.6316 | 37.5000 | 21.8750 | 57.3333 | 6 | 10 | 7 | 25 | 17 | 68.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4857 | 99.3958 | 99.5758 | 60.5358 | 1645 | 10 | 1643 | 7 | 4 | 57.1429 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m1_e0 | * | 96.3107 | 96.1240 | 96.4981 | 87.2076 | 248 | 10 | 248 | 9 | 2 | 22.2222 | |
| astatham-gatk | INDEL | I16_PLUS | HG002complexvar | het | 99.2424 | 98.4962 | 100.0000 | 64.5705 | 655 | 10 | 631 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 93.6709 | 88.0952 | 100.0000 | 59.3407 | 74 | 10 | 74 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | segdup | * | 99.1033 | 99.0557 | 99.1509 | 94.5434 | 1049 | 10 | 1051 | 9 | 2 | 22.2222 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.8462 | 95.9514 | 97.7578 | 81.0374 | 237 | 10 | 218 | 5 | 3 | 60.0000 | |
| astatham-gatk | INDEL | D1_5 | HG002complexvar | homalt | 99.8868 | 99.8962 | 99.8774 | 60.2109 | 10587 | 11 | 10592 | 13 | 11 | 84.6154 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.3386 | 84.0580 | 100.0000 | 55.7252 | 58 | 11 | 58 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7633 | 99.8064 | 97.7418 | 57.2891 | 5670 | 11 | 5670 | 131 | 129 | 98.4733 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 96.1977 | 95.8333 | 96.5649 | 87.7741 | 253 | 11 | 253 | 9 | 2 | 22.2222 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.4079 | 91.7293 | 97.2477 | 87.7940 | 122 | 11 | 106 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8625 | 99.9182 | 99.8069 | 52.9404 | 13437 | 11 | 13442 | 26 | 26 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0966 | 96.8208 | 99.4065 | 69.4192 | 335 | 11 | 335 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.9826 | 96.1806 | 95.7854 | 80.4641 | 277 | 11 | 250 | 11 | 8 | 72.7273 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.3995 | 94.9309 | 100.0000 | 39.7222 | 206 | 11 | 217 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.0901 | 81.9672 | 100.0000 | 54.1284 | 50 | 11 | 50 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.6851 | 94.0860 | 99.4318 | 71.0526 | 175 | 11 | 175 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2357 | 98.7135 | 99.7636 | 51.8223 | 844 | 11 | 844 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.6696 | 99.8938 | 97.4750 | 45.7112 | 10346 | 11 | 10346 | 268 | 263 | 98.1343 | |
| bgallagher-sentieon | INDEL | * | map_l100_m1_e0 | hetalt | 94.9615 | 91.1290 | 99.1304 | 85.4061 | 113 | 11 | 114 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e0 | hetalt | 95.0068 | 91.2000 | 99.1453 | 86.4111 | 114 | 11 | 116 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | segdup | het | 98.8787 | 99.2497 | 98.5105 | 95.1038 | 1455 | 11 | 1455 | 22 | 2 | 9.0909 | |