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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3101-3150 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | * | map_l250_m2_e0 | het | 62.7486 | 57.4894 | 69.0669 | 93.5182 | 2986 | 2208 | 2983 | 1336 | 41 | 3.0689 | |
| ckim-vqsr | SNP | ti | map_l150_m0_e0 | homalt | 33.4238 | 20.0652 | 100.0000 | 93.2216 | 554 | 2207 | 554 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9085 | 96.6244 | 99.2272 | 64.2470 | 63145 | 2206 | 62918 | 490 | 402 | 82.0408 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9085 | 96.6244 | 99.2272 | 64.2470 | 63145 | 2206 | 62918 | 490 | 402 | 82.0408 | |
| gduggal-bwavard | INDEL | D6_15 | * | homalt | 78.7719 | 65.1755 | 99.5366 | 41.1089 | 4123 | 2203 | 4081 | 19 | 14 | 73.6842 | |
| jmaeng-gatk | SNP | ti | map_l250_m2_e0 | * | 71.2437 | 56.0503 | 97.7368 | 96.1742 | 2807 | 2201 | 2807 | 65 | 8 | 12.3077 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9134 | 96.6320 | 97.1965 | 74.4490 | 63150 | 2201 | 65872 | 1900 | 1174 | 61.7895 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9134 | 96.6320 | 97.1965 | 74.4490 | 63150 | 2201 | 65872 | 1900 | 1174 | 61.7895 | |
| mlin-fermikit | INDEL | I1_5 | * | het | 97.2425 | 97.2166 | 97.2684 | 53.2963 | 76841 | 2200 | 76701 | 2154 | 2108 | 97.8644 | |
| ckim-vqsr | SNP | ti | map_l150_m0_e0 | het | 72.0358 | 56.8570 | 98.2706 | 94.0511 | 2898 | 2199 | 2898 | 51 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 45.1634 | 29.5192 | 96.0848 | 46.1217 | 921 | 2199 | 2356 | 96 | 96 | 100.0000 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | hetalt | 95.3319 | 91.2708 | 99.7711 | 50.5352 | 22982 | 2198 | 23098 | 53 | 53 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 55.7305 | 44.0570 | 75.8202 | 34.2652 | 1731 | 2198 | 1872 | 597 | 591 | 98.9950 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 55.0977 | 41.6888 | 81.2222 | 64.9260 | 1570 | 2196 | 1462 | 338 | 247 | 73.0769 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 55.0977 | 41.6888 | 81.2222 | 64.9260 | 1570 | 2196 | 1462 | 338 | 247 | 73.0769 | |
| gduggal-snapfb | INDEL | D1_5 | * | het | 96.7358 | 97.4935 | 95.9898 | 56.7536 | 85379 | 2195 | 91342 | 3816 | 775 | 20.3092 | |
| ckim-gatk | SNP | ti | map_l250_m2_e0 | * | 71.3054 | 56.1701 | 97.6058 | 96.1011 | 2813 | 2195 | 2813 | 69 | 9 | 13.0435 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 80.2831 | 67.3994 | 99.2563 | 60.8562 | 4538 | 2195 | 4538 | 34 | 12 | 35.2941 | |
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.7025 | 78.2609 | 99.7349 | 69.6723 | 7902 | 2195 | 7900 | 21 | 19 | 90.4762 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.1072 | 85.9151 | 94.7294 | 66.7970 | 13383 | 2194 | 13354 | 743 | 724 | 97.4428 | |
| ltrigg-rtg1 | SNP | ti | * | * | 99.8970 | 99.8948 | 99.8992 | 16.3223 | 2083318 | 2194 | 2083241 | 2102 | 174 | 8.2778 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 54.1073 | 0.0000 | 0.0000 | 2582 | 2190 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.2283 | 0.0000 | 0.0000 | 5 | 2185 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.2283 | 0.0000 | 0.0000 | 5 | 2185 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.3659 | 78.3797 | 98.6795 | 72.5835 | 7914 | 2183 | 7921 | 106 | 54 | 50.9434 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.3653 | 0.0000 | 0.0000 | 8 | 2182 | 0 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7746 | 96.6611 | 98.9141 | 61.8918 | 63169 | 2182 | 63489 | 697 | 270 | 38.7374 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7746 | 96.6611 | 98.9141 | 61.8918 | 63169 | 2182 | 63489 | 697 | 270 | 38.7374 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 83.9960 | 76.5257 | 93.0825 | 45.8976 | 7110 | 2181 | 2449 | 182 | 112 | 61.5385 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 83.9960 | 76.5257 | 93.0825 | 45.8976 | 7110 | 2181 | 2449 | 182 | 112 | 61.5385 | |
| gduggal-bwafb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 90.6109 | 85.8533 | 95.9267 | 79.8715 | 13236 | 2181 | 4239 | 180 | 178 | 98.8889 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 23.7409 | 20.8999 | 27.4757 | 50.6350 | 576 | 2180 | 566 | 1494 | 1477 | 98.8621 | |
| ciseli-custom | SNP | ti | map_siren | homalt | 93.8892 | 94.2504 | 93.5307 | 51.3255 | 35736 | 2180 | 35566 | 2460 | 1879 | 76.3821 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 35.0251 | 32.1184 | 38.5102 | 64.1905 | 1031 | 2179 | 1034 | 1651 | 1642 | 99.4549 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 45.6100 | 45.3313 | 45.8922 | 57.7778 | 1806 | 2178 | 2860 | 3372 | 2355 | 69.8399 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | * | 77.8146 | 81.9066 | 74.1121 | 85.6738 | 9855 | 2177 | 9745 | 3404 | 959 | 28.1727 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 46.1795 | 45.3564 | 47.0329 | 65.4087 | 1807 | 2177 | 1815 | 2044 | 1056 | 51.6634 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | * | 93.3591 | 92.7336 | 93.9930 | 68.4001 | 27783 | 2177 | 27758 | 1774 | 1747 | 98.4780 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 59.5793 | 42.8121 | 97.9353 | 47.2358 | 1629 | 2176 | 3178 | 67 | 62 | 92.5373 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8737 | 96.6718 | 99.1058 | 64.7457 | 63176 | 2175 | 62956 | 568 | 465 | 81.8662 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8737 | 96.6718 | 99.1058 | 64.7457 | 63176 | 2175 | 62956 | 568 | 465 | 81.8662 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | * | 93.9622 | 92.7503 | 95.2061 | 62.6940 | 27788 | 2172 | 27665 | 1393 | 1381 | 99.1385 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 24.2608 | 21.2264 | 28.3074 | 52.9088 | 585 | 2171 | 582 | 1474 | 1470 | 99.7286 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 78.1733 | 64.2951 | 99.6920 | 43.7482 | 3904 | 2168 | 3884 | 12 | 10 | 83.3333 | |
| gduggal-bwafb | INDEL | * | * | homalt | 98.0353 | 98.2688 | 97.8029 | 56.6087 | 123005 | 2167 | 122991 | 2763 | 2706 | 97.9370 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 15.8160 | 8.6076 | 97.2973 | 51.3158 | 204 | 2166 | 144 | 4 | 4 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | * | het | 98.0966 | 97.2622 | 98.9454 | 56.5385 | 76877 | 2164 | 82849 | 883 | 649 | 73.4994 | |
| gduggal-snapfb | INDEL | * | HG002complexvar | homalt | 93.4910 | 91.9932 | 95.0384 | 54.0929 | 24863 | 2164 | 24901 | 1300 | 829 | 63.7692 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.5561 | 42.5651 | 99.1245 | 51.1308 | 1603 | 2163 | 1585 | 14 | 12 | 85.7143 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.5561 | 42.5651 | 99.1245 | 51.1308 | 1603 | 2163 | 1585 | 14 | 12 | 85.7143 | |