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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19301-19350 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.4186 | 99.7085 | 99.1304 | 84.9608 | 342 | 1 | 342 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m0_e0 | * | 97.7192 | 97.1591 | 98.2857 | 92.7023 | 171 | 5 | 172 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.9950 | 99.4949 | 98.5000 | 87.0801 | 197 | 1 | 197 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.0099 | 99.5025 | 98.5222 | 88.5634 | 200 | 1 | 200 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 99.0244 | 99.5098 | 98.5437 | 88.6501 | 203 | 1 | 203 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 95.6938 | 94.3396 | 97.0874 | 96.3358 | 100 | 6 | 100 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l250_m2_e0 | * | 95.9641 | 94.6903 | 97.2727 | 96.6616 | 107 | 6 | 107 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l250_m2_e1 | * | 96.0000 | 94.7368 | 97.2973 | 96.7401 | 108 | 6 | 108 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_siren | homalt | 99.6298 | 99.7525 | 99.5074 | 78.6951 | 1209 | 3 | 1212 | 6 | 4 | 66.6667 | |
| dgrover-gatk | INDEL | I6_15 | map_siren | * | 97.1901 | 96.3934 | 98.0000 | 85.1852 | 294 | 11 | 294 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7836 | 97.1503 | 98.4252 | 91.2111 | 375 | 11 | 375 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6407 | 97.4638 | 97.8182 | 91.2809 | 269 | 7 | 269 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9143 | 99.8827 | 99.9458 | 56.3849 | 11071 | 13 | 11067 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | * | map_l125_m0_e0 | homalt | 99.3639 | 98.9124 | 99.8196 | 67.9886 | 6639 | 73 | 6639 | 12 | 8 | 66.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m1_e0 | homalt | 99.0596 | 98.3199 | 99.8105 | 85.5645 | 1580 | 27 | 1580 | 3 | 2 | 66.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e0 | homalt | 99.1074 | 98.3991 | 99.8260 | 86.5878 | 1721 | 28 | 1721 | 3 | 2 | 66.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e1 | homalt | 99.1191 | 98.4199 | 99.8283 | 86.6233 | 1744 | 28 | 1744 | 3 | 2 | 66.6667 | |
| dgrover-gatk | SNP | tv | map_l150_m0_e0 | homalt | 99.2811 | 98.7952 | 99.7719 | 75.6572 | 1312 | 16 | 1312 | 3 | 2 | 66.6667 | |
| dgrover-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.4146 | 98.9863 | 99.8466 | 69.3080 | 3906 | 40 | 3906 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.4343 | 99.0203 | 99.8518 | 71.6158 | 4043 | 40 | 4043 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | tv | map_l150_m2_e1 | homalt | 99.4413 | 99.0324 | 99.8537 | 71.5870 | 4094 | 40 | 4094 | 6 | 4 | 66.6667 | |
| dgrover-gatk | SNP | tv | map_l250_m0_e0 | homalt | 98.1818 | 97.9275 | 98.4375 | 92.5983 | 189 | 4 | 189 | 3 | 2 | 66.6667 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.2515 | 91.2014 | 89.3212 | 56.4841 | 1078 | 104 | 1079 | 129 | 86 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0329 | 99.2248 | 98.8417 | 84.1880 | 256 | 2 | 256 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3232 | 99.1554 | 99.4915 | 83.5517 | 587 | 5 | 587 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3443 | 99.1817 | 99.5074 | 84.1571 | 606 | 5 | 606 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3538 | 99.1935 | 99.5146 | 84.2025 | 615 | 5 | 615 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 80.0633 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5517 | 99.4030 | 99.7009 | 66.4548 | 999 | 6 | 1000 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5944 | 99.5365 | 99.6524 | 64.2502 | 859 | 4 | 860 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.5454 | 94.9673 | 98.1769 | 85.0222 | 1453 | 77 | 1454 | 27 | 18 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.5454 | 94.9673 | 98.1769 | 85.0222 | 1453 | 77 | 1454 | 27 | 18 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.9112 | 96.6495 | 99.2063 | 75.8157 | 375 | 13 | 375 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.2840 | 100.0000 | 98.5782 | 81.2278 | 208 | 0 | 208 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5441 | 97.3505 | 99.7673 | 61.8300 | 1286 | 35 | 1286 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.3822 | 96.3731 | 98.4127 | 91.0490 | 372 | 14 | 372 | 6 | 4 | 66.6667 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.0803 | 96.3768 | 97.7941 | 91.0703 | 266 | 10 | 266 | 6 | 4 | 66.6667 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6562 | 99.3685 | 99.9455 | 58.6114 | 11014 | 70 | 11010 | 6 | 4 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m1_e0 | homalt | 45.7370 | 29.6539 | 99.9402 | 85.9137 | 5013 | 11892 | 5013 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | homalt | 47.2295 | 30.9206 | 99.9447 | 86.7543 | 5421 | 12111 | 5421 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4469 | 98.9759 | 99.9224 | 33.5509 | 3866 | 40 | 3865 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1292 | 96.6767 | 99.6259 | 57.5998 | 1600 | 55 | 1598 | 6 | 4 | 66.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.9637 | 99.4792 | 98.4536 | 42.7729 | 191 | 1 | 191 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | segdup | * | 96.5333 | 94.7644 | 98.3696 | 93.4752 | 181 | 10 | 181 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.9792 | 95.6179 | 98.3798 | 79.2724 | 1091 | 50 | 1093 | 18 | 12 | 66.6667 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 40.0000 | 100.0000 | 25.0000 | 92.9825 | 1 | 0 | 1 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8453 | 100.0000 | 99.6910 | 63.6738 | 968 | 0 | 968 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1370 | 98.6663 | 99.6121 | 66.8126 | 3847 | 52 | 3852 | 15 | 10 | 66.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m0_e0 | homalt | 98.7013 | 100.0000 | 97.4359 | 84.0816 | 114 | 0 | 114 | 3 | 2 | 66.6667 | |