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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15851-15900 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D6_15 | HG002complexvar | * | 97.2520 | 96.7937 | 97.7147 | 58.0825 | 5132 | 170 | 5131 | 120 | 96 | 80.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.1165 | 94.7368 | 97.5369 | 76.0331 | 198 | 11 | 198 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2126 | 99.5485 | 98.8789 | 32.5265 | 441 | 2 | 441 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I16_PLUS | HG002compoundhet | hetalt | 93.0151 | 87.1476 | 99.7297 | 45.3148 | 1824 | 269 | 1845 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 28.5714 | 100.0000 | 16.6667 | 91.3043 | 1 | 0 | 1 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 96.7853 | 94.0324 | 99.7041 | 70.7004 | 1623 | 103 | 1685 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.8351 | 90.2733 | 99.8824 | 28.4609 | 4195 | 452 | 4248 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.8267 | 90.2557 | 99.8855 | 32.3046 | 4307 | 465 | 4360 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.7955 | 92.0590 | 99.8481 | 42.7080 | 3246 | 280 | 3287 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.7955 | 92.0590 | 99.8481 | 42.7080 | 3246 | 280 | 3287 | 5 | 4 | 80.0000 | |
| jlack-gatk | SNP | * | map_siren | hetalt | 95.1220 | 96.2963 | 93.9759 | 79.4045 | 78 | 3 | 78 | 5 | 4 | 80.0000 | |
| jlack-gatk | SNP | tv | map_siren | hetalt | 95.1220 | 96.2963 | 93.9759 | 79.4045 | 78 | 3 | 78 | 5 | 4 | 80.0000 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | homalt | 98.5965 | 98.9437 | 98.2517 | 86.9644 | 281 | 3 | 281 | 5 | 4 | 80.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2429 | 94.0621 | 98.5272 | 72.0921 | 697 | 44 | 669 | 10 | 8 | 80.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.8213 | 96.4615 | 99.2200 | 21.9245 | 627 | 23 | 636 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7467 | 97.8979 | 99.6103 | 71.3232 | 1304 | 28 | 1278 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9545 | 96.0747 | 99.9093 | 57.3738 | 5507 | 225 | 5507 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.5197 | 100.0000 | 99.0440 | 79.1965 | 518 | 0 | 518 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.5314 | 100.0000 | 99.0672 | 80.7125 | 531 | 0 | 531 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 80.8099 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_siren | homalt | 99.6707 | 99.7525 | 99.5892 | 76.9508 | 1209 | 3 | 1212 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6488 | 94.3546 | 99.0574 | 55.6339 | 3677 | 220 | 3678 | 35 | 28 | 80.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.5336 | 94.5455 | 98.6072 | 76.2252 | 364 | 21 | 354 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.1961 | 100.0000 | 82.1429 | 88.0342 | 23 | 0 | 23 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.0630 | 100.0000 | 92.4242 | 91.1409 | 61 | 0 | 61 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.7138 | 93.2886 | 96.1832 | 76.0073 | 139 | 10 | 126 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7615 | 99.7879 | 99.7350 | 71.4307 | 1882 | 4 | 1882 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m0_e0 | homalt | 98.7741 | 99.2958 | 98.2578 | 86.8469 | 282 | 2 | 282 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | * | segdup | homalt | 99.6360 | 99.7917 | 99.4808 | 93.2596 | 958 | 2 | 958 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.5176 | 92.5752 | 96.5432 | 70.8171 | 1970 | 158 | 1955 | 70 | 56 | 80.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 81.1947 | 74.8148 | 88.7640 | 73.9003 | 101 | 34 | 79 | 10 | 8 | 80.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | het | 95.8142 | 92.5641 | 99.3009 | 57.1386 | 2888 | 232 | 2841 | 20 | 16 | 80.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.5323 | 89.9522 | 97.4093 | 74.9025 | 188 | 21 | 188 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.2449 | 88.9764 | 95.7627 | 76.5408 | 113 | 14 | 113 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5075 | 99.0450 | 97.9757 | 72.8173 | 726 | 7 | 726 | 15 | 12 | 80.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 60.8637 | 44.5230 | 96.1538 | 69.9074 | 126 | 157 | 125 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 44.5230 | 36.0000 | 58.3333 | 84.0000 | 9 | 16 | 7 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 73.6842 | 100.0000 | 58.3333 | 83.5616 | 2 | 0 | 7 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | homalt | 97.6436 | 95.6533 | 99.7185 | 71.0895 | 10783 | 490 | 10627 | 30 | 24 | 80.0000 | |
| gduggal-snapvard | SNP | ti | map_l250_m0_e0 | homalt | 95.6171 | 92.6606 | 98.7685 | 92.5912 | 404 | 32 | 401 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 62.5000 | 58.8235 | 66.6667 | 99.8072 | 10 | 7 | 10 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 75.0000 | 90.0000 | 64.2857 | 99.6130 | 9 | 1 | 9 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 76.7278 | 76.1905 | 77.2727 | 99.9025 | 16 | 5 | 17 | 5 | 4 | 80.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 37.9562 | 27.0833 | 63.4146 | 40.5797 | 52 | 140 | 52 | 30 | 24 | 80.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 13.1980 | 7.2626 | 72.2222 | 76.0000 | 13 | 166 | 13 | 5 | 4 | 80.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 82.6052 | 70.6331 | 99.4641 | 48.4530 | 926 | 385 | 928 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | INDEL | * | func_cds | het | 80.5822 | 87.3832 | 74.7634 | 51.0046 | 187 | 27 | 237 | 80 | 64 | 80.0000 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 0.0000 | 0.0000 | 77.2727 | 81.3559 | 0 | 0 | 17 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | INDEL | C6_15 | HG002compoundhet | homalt | 0.0000 | 0.0000 | 77.2727 | 0 | 0 | 0 | 10 | 8 | 80.0000 | ||
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m1_e0 | * | 13.7405 | 7.6923 | 64.2857 | 76.0684 | 2 | 24 | 18 | 10 | 8 | 80.0000 | |