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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17301-17350 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I1_5 | map_siren | het | 87.6104 | 81.4396 | 94.7930 | 85.2134 | 1369 | 312 | 1511 | 83 | 20 | 24.0964 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.6154 | 86.5925 | 99.5389 | 29.1978 | 1479 | 229 | 1511 | 7 | 7 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8835 | 96.7762 | 99.0164 | 72.2070 | 1561 | 52 | 1510 | 15 | 11 | 73.3333 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 69.3130 | 73.8369 | 65.3114 | 41.5571 | 1222 | 433 | 1510 | 802 | 609 | 75.9352 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 87.7895 | 79.0971 | 98.6283 | 41.6540 | 1279 | 338 | 1510 | 21 | 19 | 90.4762 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 81.2556 | 88.9456 | 74.7895 | 89.6153 | 1569 | 195 | 1510 | 509 | 141 | 27.7014 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002compoundhet | * | 77.8953 | 64.5023 | 98.3073 | 45.7436 | 1510 | 831 | 1510 | 26 | 25 | 96.1538 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2437 | 99.5383 | 98.9508 | 69.9567 | 1509 | 7 | 1509 | 16 | 2 | 12.5000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 88.6006 | 96.8987 | 81.6117 | 67.2685 | 1531 | 49 | 1509 | 340 | 6 | 1.7647 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.7618 | 93.7850 | 99.9338 | 39.2110 | 1509 | 100 | 1509 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0298 | 86.3583 | 98.4987 | 30.6787 | 1475 | 233 | 1509 | 23 | 22 | 95.6522 | |
| astatham-gatk | INDEL | * | map_l100_m0_e0 | * | 96.7251 | 96.2892 | 97.1649 | 87.6728 | 1505 | 58 | 1508 | 44 | 9 | 20.4545 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4723 | 99.6037 | 99.3412 | 88.4492 | 1508 | 6 | 1508 | 10 | 9 | 90.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.0940 | 96.7742 | 97.4160 | 59.9171 | 510 | 17 | 1508 | 40 | 36 | 90.0000 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.5051 | 99.6037 | 99.4067 | 88.7962 | 1508 | 6 | 1508 | 9 | 9 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.8250 | 81.9075 | 94.6642 | 24.8939 | 1417 | 313 | 1508 | 85 | 84 | 98.8235 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 34.2641 | 93.9894 | 20.9509 | 81.3237 | 1423 | 91 | 1507 | 5686 | 93 | 1.6356 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.5979 | 99.1989 | 100.0000 | 79.0898 | 1486 | 12 | 1507 | 0 | 0 | ||
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.8622 | 85.4308 | 99.3408 | 88.0041 | 1507 | 257 | 1507 | 10 | 4 | 40.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | HG002complexvar | * | 93.9813 | 92.4528 | 95.5612 | 63.5376 | 1519 | 124 | 1507 | 70 | 64 | 91.4286 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5381 | 97.5357 | 97.5405 | 74.8248 | 1504 | 38 | 1507 | 38 | 24 | 63.1579 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.7915 | 98.1506 | 89.8032 | 88.0725 | 1486 | 28 | 1506 | 171 | 13 | 7.6023 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 70.9064 | 96.1777 | 56.1521 | 58.9971 | 931 | 37 | 1506 | 1176 | 1140 | 96.9388 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.6861 | 86.5079 | 37.8773 | 88.9660 | 1526 | 238 | 1506 | 2470 | 92 | 3.7247 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.2751 | 99.6037 | 98.9488 | 87.5654 | 1508 | 6 | 1506 | 16 | 13 | 81.2500 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4059 | 99.4716 | 99.3404 | 88.6280 | 1506 | 8 | 1506 | 10 | 9 | 90.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3727 | 99.4055 | 99.3399 | 88.6347 | 1505 | 9 | 1505 | 10 | 9 | 90.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.4386 | 99.3404 | 99.5370 | 69.4360 | 1506 | 10 | 1505 | 7 | 2 | 28.5714 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3723 | 99.3395 | 99.4052 | 88.3238 | 1504 | 10 | 1504 | 9 | 9 | 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 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 75.3565 | 68.2801 | 84.0693 | 69.0324 | 1453 | 675 | 1504 | 285 | 237 | 83.1579 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.4631 | 98.9319 | 100.0000 | 77.5605 | 1482 | 16 | 1503 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.6190 | 95.4920 | 93.7617 | 82.9704 | 1737 | 82 | 1503 | 100 | 82 | 82.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.6190 | 95.4920 | 93.7617 | 82.9704 | 1737 | 82 | 1503 | 100 | 82 | 82.0000 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e0 | homalt | 39.9681 | 24.9792 | 99.9335 | 89.0706 | 1503 | 4514 | 1503 | 1 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.6868 | 99.2734 | 98.1070 | 88.8808 | 1503 | 11 | 1503 | 29 | 14 | 48.2759 | |
| dgrover-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.3391 | 99.1425 | 99.5364 | 69.3276 | 1503 | 13 | 1503 | 7 | 2 | 28.5714 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.8319 | 77.0675 | 87.2242 | 66.9862 | 1519 | 452 | 1502 | 220 | 128 | 58.1818 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.8319 | 77.0675 | 87.2242 | 66.9862 | 1519 | 452 | 1502 | 220 | 128 | 58.1818 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.2110 | 93.8346 | 64.1606 | 62.6038 | 624 | 41 | 1502 | 839 | 231 | 27.5328 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 85.6996 | 85.4251 | 85.9760 | 54.8462 | 633 | 108 | 1502 | 245 | 198 | 80.8163 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3136 | 99.0921 | 99.5361 | 73.0198 | 1528 | 14 | 1502 | 7 | 5 | 71.4286 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.4916 | 85.0340 | 99.0106 | 87.6728 | 1500 | 264 | 1501 | 15 | 3 | 20.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.4487 | 86.0070 | 99.9334 | 30.1720 | 1469 | 239 | 1501 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.3053 | 99.0106 | 99.6019 | 68.7862 | 1501 | 15 | 1501 | 6 | 1 | 16.6667 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.4879 | 99.7997 | 89.7129 | 85.3011 | 1495 | 3 | 1500 | 172 | 100 | 58.1395 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9120 | 99.0753 | 98.7492 | 88.2866 | 1500 | 14 | 1500 | 19 | 8 | 42.1053 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.4148 | 85.9485 | 99.9334 | 29.8926 | 1468 | 240 | 1500 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 81.0114 | 86.8467 | 75.9109 | 68.6846 | 1479 | 224 | 1500 | 476 | 205 | 43.0672 | |