PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13001-13050 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.3835 | 94.9801 | 99.9116 | 43.2609 | 3349 | 177 | 3390 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | * | map_siren | homalt | 99.8121 | 99.6791 | 99.9455 | 50.4067 | 54979 | 177 | 54970 | 30 | 26 | 86.6667 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8942 | 97.8828 | 99.9267 | 51.0090 | 8183 | 177 | 8175 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8942 | 97.8828 | 99.9267 | 51.0090 | 8183 | 177 | 8175 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8678 | 98.2992 | 99.4430 | 40.4688 | 10230 | 177 | 10177 | 57 | 24 | 42.1053 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | het | 98.7987 | 98.2358 | 99.3681 | 45.8366 | 9856 | 177 | 9592 | 61 | 15 | 24.5902 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | homalt | 74.4541 | 65.8301 | 85.6784 | 74.7141 | 341 | 177 | 341 | 57 | 55 | 96.4912 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m0_e0 | * | 57.0815 | 42.9032 | 85.2564 | 80.1020 | 133 | 177 | 133 | 23 | 21 | 91.3043 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e0 | het | 59.3258 | 42.7184 | 97.0588 | 85.5779 | 132 | 177 | 132 | 4 | 2 | 50.0000 | |
| ltrigg-rtg2 | SNP | ti | HG002compoundhet | * | 99.3879 | 98.9873 | 99.7918 | 33.3089 | 17301 | 177 | 17255 | 36 | 13 | 36.1111 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m2_e0 | * | 96.7626 | 93.8584 | 99.8522 | 79.6388 | 2705 | 177 | 2702 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m2_e1 | * | 96.8015 | 93.9300 | 99.8540 | 79.7875 | 2739 | 177 | 2736 | 4 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | * | map_siren | * | 97.7903 | 97.6113 | 97.9700 | 96.5183 | 7233 | 177 | 7239 | 150 | 78 | 52.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3853 | 98.0620 | 98.7107 | 74.2575 | 8956 | 177 | 8958 | 117 | 19 | 16.2393 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3853 | 98.0620 | 98.7107 | 74.2575 | 8956 | 177 | 8958 | 117 | 19 | 16.2393 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 51.3899 | 95.4252 | 35.1633 | 52.7695 | 3692 | 177 | 3715 | 6850 | 6821 | 99.5766 | |
| ghariani-varprowl | INDEL | I6_15 | HG002complexvar | het | 82.0261 | 92.4841 | 73.6930 | 59.9920 | 2178 | 177 | 2213 | 790 | 772 | 97.7215 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 1.1095 | 0.5618 | 44.1176 | 64.0212 | 1 | 177 | 30 | 38 | 22 | 57.8947 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.4953 | 98.4031 | 98.5877 | 57.4464 | 10907 | 177 | 10820 | 155 | 36 | 23.2258 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8111 | 95.6479 | 98.0030 | 65.9757 | 3890 | 177 | 3877 | 79 | 63 | 79.7468 | |
| hfeng-pmm3 | INDEL | * | HG002complexvar | hetalt | 97.4347 | 95.2149 | 99.7604 | 68.3328 | 3522 | 177 | 3748 | 9 | 7 | 77.7778 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8837 | 95.6479 | 98.1519 | 65.9512 | 3890 | 177 | 3877 | 73 | 64 | 87.6712 | |
| jlack-gatk | INDEL | D16_PLUS | * | hetalt | 94.8361 | 90.8432 | 99.1960 | 37.9289 | 1756 | 177 | 1974 | 16 | 15 | 93.7500 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9217 | 96.6692 | 99.2071 | 63.7791 | 5137 | 177 | 5380 | 43 | 37 | 86.0465 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | * | 98.6448 | 99.2929 | 98.0051 | 71.3118 | 24856 | 177 | 24859 | 506 | 45 | 8.8933 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e0 | het | 72.4320 | 65.5642 | 80.9069 | 93.9773 | 337 | 177 | 339 | 80 | 21 | 26.2500 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 1.1173 | 0.0000 | 0.0000 | 2 | 177 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D16_PLUS | * | hetalt | 0.0000 | 90.8432 | 0.0000 | 0.0000 | 1756 | 177 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 90.8338 | 0.0000 | 0.0000 | 1754 | 177 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 90.8338 | 0.0000 | 0.0000 | 1754 | 177 | 0 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.7949 | 99.4246 | 98.1731 | 74.1057 | 30584 | 177 | 31383 | 584 | 402 | 68.8356 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 16.3986 | 10.1523 | 42.6230 | 80.1303 | 20 | 177 | 26 | 35 | 26 | 74.2857 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 84.4600 | 82.3881 | 86.6388 | 62.5342 | 828 | 177 | 830 | 128 | 125 | 97.6562 | |
| jli-custom | SNP | * | map_l250_m1_e0 | het | 97.5495 | 96.2776 | 98.8555 | 86.3033 | 4578 | 177 | 4578 | 53 | 23 | 43.3962 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 81.2423 | 74.6055 | 89.1753 | 53.3280 | 520 | 177 | 519 | 63 | 62 | 98.4127 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6504 | 99.6818 | 99.6191 | 61.4842 | 55454 | 177 | 55443 | 212 | 23 | 10.8491 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 94.0923 | 91.7872 | 96.5162 | 52.1372 | 1967 | 176 | 1967 | 71 | 70 | 98.5915 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 57.0116 | 54.1667 | 60.1719 | 83.5842 | 208 | 176 | 210 | 139 | 136 | 97.8417 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0535 | 95.4837 | 98.6758 | 53.2615 | 3721 | 176 | 3726 | 50 | 39 | 78.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 94.8587 | 90.8856 | 99.1952 | 37.8556 | 1755 | 176 | 1972 | 16 | 15 | 93.7500 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 94.8587 | 90.8856 | 99.1952 | 37.8556 | 1755 | 176 | 1972 | 16 | 15 | 93.7500 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5385 | 93.3434 | 99.9601 | 37.5156 | 2468 | 176 | 2504 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | * | 99.3490 | 99.1071 | 99.5921 | 73.5929 | 19536 | 176 | 19532 | 80 | 23 | 28.7500 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9984 | 98.8832 | 99.1137 | 59.5275 | 15584 | 176 | 15433 | 138 | 107 | 77.5362 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e1 | het | 99.5633 | 99.4315 | 99.6955 | 65.7255 | 30784 | 176 | 30777 | 94 | 9 | 9.5745 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 32.7668 | 34.5725 | 31.1404 | 85.7143 | 93 | 176 | 71 | 157 | 40 | 25.4777 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.4193 | 63.9344 | 75.9336 | 65.0725 | 312 | 176 | 366 | 116 | 104 | 89.6552 | |
| ghariani-varprowl | SNP | * | map_l125_m0_e0 | homalt | 98.5153 | 97.3778 | 99.6797 | 71.5507 | 6536 | 176 | 6536 | 21 | 10 | 47.6190 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e0 | * | 97.0484 | 98.4500 | 95.6860 | 81.5364 | 11179 | 176 | 11179 | 504 | 90 | 17.8571 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e1 | * | 97.0647 | 98.4698 | 95.6992 | 81.5758 | 11326 | 176 | 11326 | 509 | 90 | 17.6817 | |