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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51101-51150 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9783 | 96.9173 | 93.1153 | 84.1668 | 1289 | 41 | 1082 | 80 | 71 | 88.7500 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e1 | homalt | 65.2941 | 54.4118 | 81.6176 | 84.1676 | 111 | 93 | 111 | 25 | 23 | 92.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.0917 | 97.5369 | 94.6886 | 84.1739 | 594 | 15 | 517 | 29 | 25 | 86.2069 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m2_e1 | het | 98.3148 | 97.1605 | 99.4969 | 84.1760 | 787 | 23 | 791 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l150_m2_e0 | homalt | 97.7330 | 96.5174 | 98.9796 | 84.1808 | 194 | 7 | 194 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.3574 | 99.5074 | 95.2984 | 84.1819 | 606 | 3 | 527 | 26 | 22 | 84.6154 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.0576 | 82.2478 | 99.5062 | 84.1820 | 3220 | 695 | 3224 | 16 | 14 | 87.5000 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e0 | * | 62.4314 | 45.4117 | 99.8563 | 84.1830 | 22234 | 26727 | 22230 | 32 | 12 | 37.5000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m0_e0 | homalt | 99.3243 | 99.3243 | 99.3243 | 84.1880 | 147 | 1 | 147 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0329 | 99.2248 | 98.8417 | 84.1880 | 256 | 2 | 256 | 3 | 2 | 66.6667 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m2_e1 | homalt | 53.9043 | 40.0000 | 82.6255 | 84.1880 | 216 | 324 | 214 | 45 | 36 | 80.0000 | |
| 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-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 67.9245 | 54.5455 | 90.0000 | 84.1897 | 36 | 30 | 36 | 4 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 52.8416 | 65.7143 | 44.1860 | 84.1912 | 23 | 12 | 19 | 24 | 24 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 97.0079 | 94.1896 | 100.0000 | 84.1944 | 308 | 19 | 309 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.3952 | 98.3425 | 83.6364 | 84.1954 | 356 | 6 | 230 | 45 | 43 | 95.5556 | |
| ltrigg-rtg2 | INDEL | D6_15 | map_l100_m0_e0 | het | 94.9137 | 95.0000 | 94.8276 | 84.1962 | 57 | 3 | 55 | 3 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | * | map_l100_m0_e0 | het | 96.6024 | 96.1802 | 97.0283 | 84.1962 | 982 | 39 | 1404 | 43 | 23 | 53.4884 | |
| bgallagher-sentieon | INDEL | D6_15 | map_siren | homalt | 98.4496 | 97.6923 | 99.2188 | 84.1975 | 127 | 3 | 127 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m1_e0 | homalt | 98.4375 | 98.4375 | 98.4375 | 84.1975 | 63 | 1 | 63 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_siren | * | 94.8669 | 91.8674 | 98.0688 | 84.1980 | 3242 | 287 | 3250 | 64 | 8 | 12.5000 | |
| 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-gatk | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3538 | 99.1935 | 99.5146 | 84.2025 | 615 | 5 | 615 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m1_e0 | homalt | 99.1354 | 98.5673 | 99.7101 | 84.2033 | 344 | 5 | 344 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_l125_m0_e0 | het | 88.1418 | 95.6916 | 81.6961 | 84.2040 | 7907 | 356 | 7851 | 1759 | 129 | 7.3337 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5283 | 99.0610 | 100.0000 | 84.2066 | 844 | 8 | 844 | 0 | 0 | ||
| cchapple-custom | INDEL | D6_15 | map_l100_m2_e1 | * | 91.9654 | 90.5455 | 93.4307 | 84.2075 | 249 | 26 | 256 | 18 | 11 | 61.1111 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 0.0000 | 0.0000 | 84.2105 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| jlack-gatk | INDEL | D6_15 | map_l125_m1_e0 | hetalt | 91.8919 | 89.4737 | 94.4444 | 84.2105 | 17 | 2 | 17 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l125_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 84.2105 | 3 | 0 | 3 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 58.8235 | 45.4545 | 83.3333 | 84.2105 | 5 | 6 | 5 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | map_l100_m1_e0 | * | 37.5000 | 23.0769 | 100.0000 | 84.2105 | 6 | 20 | 6 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 1.1080 | 0.5587 | 66.6667 | 84.2105 | 1 | 178 | 2 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 84.2105 | 1 | 0 | 12 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_siren | hetalt | 65.0000 | 48.1481 | 100.0000 | 84.2105 | 39 | 42 | 39 | 0 | 0 | ||
| asubramanian-gatk | INDEL | C16_PLUS | * | homalt | 0.0000 | 0.0000 | 84.2105 | 0 | 0 | 0 | 27 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 84.2105 | 0 | 0 | 0 | 6 | 0 | 0.0000 | ||
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 84.2105 | 3 | 0 | 3 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6785 | 100.0000 | 99.3590 | 84.2105 | 155 | 0 | 155 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6785 | 100.0000 | 99.3590 | 84.2105 | 155 | 0 | 155 | 1 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | C1_5 | HG002complexvar | het | 0.0000 | 14.2857 | 0.0000 | 84.2105 | 1 | 6 | 0 | 3 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m1_e0 | homalt | 42.1053 | 26.6667 | 100.0000 | 84.2105 | 4 | 11 | 9 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | map_l125_m1_e0 | homalt | 88.5246 | 79.4118 | 100.0000 | 84.2105 | 27 | 7 | 27 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_siren | * | 63.4176 | 46.8852 | 97.9592 | 84.2105 | 143 | 162 | 144 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_l125_m2_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 84.2105 | 15 | 0 | 15 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I1_5 | map_l100_m0_e0 | * | 97.3901 | 96.3168 | 98.4877 | 84.2137 | 523 | 20 | 521 | 8 | 2 | 25.0000 | |
| jlack-gatk | SNP | tv | map_l125_m0_e0 | * | 93.0649 | 98.2657 | 88.3869 | 84.2156 | 6516 | 115 | 6515 | 856 | 54 | 6.3084 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m1_e0 | het | 98.5653 | 99.2556 | 97.8845 | 84.2173 | 1200 | 9 | 1203 | 26 | 4 | 15.3846 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.2189 | 98.4978 | 90.2963 | 84.2175 | 6557 | 100 | 6216 | 668 | 71 | 10.6287 | |
| ckim-isaac | SNP | tv | map_l150_m0_e0 | het | 69.6130 | 53.4647 | 99.7375 | 84.2187 | 1520 | 1323 | 1520 | 4 | 1 | 25.0000 | |