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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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27501-27550 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.9407 | 91.2482 | 98.9446 | 37.9197 | 636 | 61 | 750 | 8 | 8 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l250_m1_e0 | het | 94.9386 | 97.6415 | 92.3813 | 91.9764 | 2898 | 70 | 2898 | 239 | 49 | 20.5021 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.9381 | 96.5675 | 93.3628 | 47.1345 | 422 | 15 | 422 | 30 | 30 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.9368 | 91.2482 | 98.9362 | 35.6164 | 636 | 61 | 744 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.9357 | 90.3933 | 99.9588 | 34.5998 | 2390 | 254 | 2426 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | homalt | 94.9357 | 94.5017 | 95.3737 | 63.6951 | 275 | 16 | 268 | 13 | 13 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.9354 | 94.1445 | 95.7397 | 51.4296 | 1238 | 77 | 1236 | 55 | 43 | 78.1818 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | * | 94.9349 | 96.5402 | 93.3822 | 73.4477 | 69898 | 2505 | 68917 | 4884 | 410 | 8.3948 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.9326 | 91.0397 | 99.1732 | 34.1898 | 2154 | 212 | 2159 | 18 | 18 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | het | 94.9295 | 96.7628 | 93.1643 | 54.7892 | 3019 | 101 | 4116 | 302 | 103 | 34.1060 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.9292 | 96.3368 | 93.5621 | 42.6632 | 3524 | 134 | 3517 | 242 | 235 | 97.1074 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.9286 | 92.1569 | 97.8723 | 55.6604 | 94 | 8 | 92 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.9278 | 95.3271 | 94.5317 | 83.5556 | 1734 | 85 | 1504 | 87 | 55 | 63.2184 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.9278 | 95.3271 | 94.5317 | 83.5556 | 1734 | 85 | 1504 | 87 | 55 | 63.2184 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.9273 | 92.5764 | 97.4006 | 82.2668 | 636 | 51 | 637 | 17 | 11 | 64.7059 | |
| asubramanian-gatk | INDEL | I6_15 | * | hetalt | 94.9273 | 91.1005 | 99.0896 | 39.2643 | 7790 | 761 | 7837 | 72 | 68 | 94.4444 | |
| cchapple-custom | INDEL | * | map_l125_m0_e0 | * | 94.9271 | 95.9184 | 93.9560 | 89.0203 | 846 | 36 | 855 | 55 | 11 | 20.0000 | |
| astatham-gatk | INDEL | * | map_l125_m2_e0 | het | 94.9267 | 92.7390 | 97.2201 | 89.8845 | 1290 | 101 | 1294 | 37 | 5 | 13.5135 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9251 | 92.9511 | 96.9847 | 70.2893 | 1978 | 150 | 1962 | 61 | 54 | 88.5246 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.9244 | 92.1529 | 97.8678 | 75.1983 | 458 | 39 | 459 | 10 | 6 | 60.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.9242 | 90.7895 | 99.4536 | 60.9392 | 345 | 35 | 364 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.9242 | 90.7895 | 99.4536 | 60.9392 | 345 | 35 | 364 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | * | homalt | 94.9240 | 90.7227 | 99.5332 | 62.2451 | 44387 | 4539 | 44353 | 208 | 178 | 85.5769 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | * | 94.9238 | 93.3394 | 96.5629 | 79.3964 | 23599 | 1684 | 23599 | 840 | 407 | 48.4524 | |
| hfeng-pmm1 | INDEL | I6_15 | HG002compoundhet | * | 94.9235 | 92.7871 | 97.1606 | 36.4711 | 8143 | 633 | 8144 | 238 | 235 | 98.7395 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9234 | 99.0868 | 91.0959 | 82.4814 | 868 | 8 | 665 | 65 | 61 | 93.8462 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.9231 | 95.7613 | 94.0995 | 63.0798 | 17396 | 770 | 17399 | 1091 | 598 | 54.8121 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.9231 | 95.7613 | 94.0995 | 63.0798 | 17396 | 770 | 17399 | 1091 | 598 | 54.8121 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 94.9226 | 99.8834 | 90.4311 | 55.1415 | 857 | 1 | 860 | 91 | 16 | 17.5824 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.9225 | 92.5121 | 97.4619 | 73.8553 | 383 | 31 | 384 | 10 | 8 | 80.0000 | |
| gduggal-bwavard | INDEL | I1_5 | func_cds | * | 94.9210 | 94.4444 | 95.4023 | 36.0294 | 170 | 10 | 166 | 8 | 6 | 75.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_siren | het | 94.9188 | 96.2522 | 93.6219 | 81.5720 | 1618 | 63 | 1644 | 112 | 17 | 15.1786 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.9172 | 93.4909 | 96.3878 | 56.5468 | 2255 | 157 | 3122 | 117 | 109 | 93.1624 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.9166 | 92.5873 | 97.3660 | 75.0931 | 8456 | 677 | 8465 | 229 | 6 | 2.6201 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.9166 | 92.5873 | 97.3660 | 75.0931 | 8456 | 677 | 8465 | 229 | 6 | 2.6201 | |
| gduggal-bwavard | INDEL | D1_5 | HG002complexvar | het | 94.9162 | 98.4397 | 91.6362 | 58.2975 | 20441 | 324 | 19546 | 1784 | 1236 | 69.2825 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9161 | 93.4959 | 96.3801 | 87.9826 | 230 | 16 | 213 | 8 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 94.9153 | 90.3226 | 100.0000 | 39.1176 | 196 | 21 | 207 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | map_l250_m1_e0 | het | 94.9153 | 93.3333 | 96.5517 | 96.1691 | 56 | 4 | 56 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | segdup | * | 94.9153 | 96.5517 | 93.3333 | 95.9541 | 56 | 2 | 56 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l250_m1_e0 | het | 94.9153 | 93.3333 | 96.5517 | 96.8132 | 56 | 4 | 56 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l100_m2_e0 | het | 94.9153 | 91.8033 | 98.2456 | 88.2231 | 56 | 5 | 56 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l100_m2_e1 | het | 94.9153 | 91.8033 | 98.2456 | 88.4146 | 56 | 5 | 56 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m1_e0 | het | 94.9153 | 96.4187 | 93.4579 | 83.5312 | 700 | 26 | 700 | 49 | 6 | 12.2449 | |
| gduggal-snapfb | SNP | ti | map_l100_m1_e0 | hetalt | 94.9153 | 96.5517 | 93.3333 | 84.4560 | 28 | 1 | 28 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | * | map_l100_m1_e0 | hetalt | 94.9153 | 90.3226 | 100.0000 | 87.1298 | 112 | 12 | 113 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D16_PLUS | segdup | * | 94.9153 | 96.5517 | 93.3333 | 95.3811 | 56 | 2 | 56 | 4 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m2_e0 | homalt | 94.9153 | 92.5620 | 97.3913 | 85.7232 | 224 | 18 | 224 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | D6_15 | map_l125_m0_e0 | het | 94.9153 | 96.5517 | 93.3333 | 95.6459 | 28 | 1 | 28 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 94.9153 | 90.3226 | 100.0000 | 36.0000 | 196 | 21 | 208 | 0 | 0 | ||