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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
31401-31450 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.4810 | 89.2361 | 95.9707 | 74.6988 | 257 | 31 | 262 | 11 | 1 | 9.0909 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4799 | 96.1498 | 89.0799 | 74.5628 | 924 | 37 | 881 | 108 | 102 | 94.4444 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4797 | 98.7648 | 86.9467 | 79.4810 | 1999 | 25 | 1925 | 289 | 9 | 3.1142 | |
| gduggal-snapfb | INDEL | * | segdup | het | 92.4787 | 90.9277 | 94.0836 | 94.1056 | 1333 | 133 | 1463 | 92 | 26 | 28.2609 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.4731 | 87.4402 | 98.1208 | 65.4453 | 731 | 105 | 731 | 14 | 12 | 85.7143 | |
| gduggal-bwaplat | INDEL | * | * | het | 92.4727 | 86.8430 | 98.8829 | 67.5454 | 168591 | 25542 | 168540 | 1904 | 839 | 44.0651 | |
| jpowers-varprowl | INDEL | * | HG002complexvar | het | 92.4718 | 94.5577 | 90.4760 | 57.5873 | 43697 | 2515 | 43680 | 4598 | 4462 | 97.0422 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m1_e0 | * | 92.4713 | 96.7831 | 88.5274 | 88.5445 | 1053 | 35 | 1034 | 134 | 19 | 14.1791 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.4707 | 95.9016 | 89.2767 | 52.5444 | 468 | 20 | 3555 | 427 | 343 | 80.3279 | |
| gduggal-snapplat | SNP | * | map_l150_m1_e0 | het | 92.4706 | 91.9807 | 92.9658 | 86.7974 | 17767 | 1549 | 17789 | 1346 | 738 | 54.8291 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m0_e0 | * | 92.4677 | 93.2039 | 91.7431 | 86.9617 | 96 | 7 | 100 | 9 | 4 | 44.4444 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 92.4658 | 89.4891 | 95.6473 | 67.6067 | 1524 | 179 | 1692 | 77 | 41 | 53.2468 | |
| qzeng-custom | INDEL | I6_15 | * | homalt | 92.4648 | 97.8362 | 87.6525 | 43.2864 | 6104 | 135 | 6105 | 860 | 457 | 53.1395 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 92.4647 | 88.7097 | 96.5517 | 99.9368 | 110 | 14 | 112 | 4 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.4644 | 86.6019 | 99.1783 | 36.1223 | 2049 | 317 | 2052 | 17 | 17 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4605 | 86.1404 | 99.7814 | 63.1476 | 14152 | 2277 | 14152 | 31 | 21 | 67.7419 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.4596 | 98.1094 | 87.4251 | 55.1844 | 9341 | 180 | 9337 | 1343 | 1337 | 99.5532 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.4584 | 97.6813 | 87.7658 | 87.3735 | 2654 | 63 | 2683 | 374 | 17 | 4.5455 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.4582 | 91.2192 | 93.7313 | 49.9720 | 2514 | 242 | 2512 | 168 | 168 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.4568 | 90.6336 | 94.3548 | 75.3152 | 1974 | 204 | 1755 | 105 | 95 | 90.4762 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4559 | 95.1485 | 89.9115 | 78.4139 | 3844 | 196 | 3556 | 399 | 354 | 88.7218 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | het | 92.4550 | 87.9526 | 97.4432 | 82.5075 | 41248 | 5650 | 41237 | 1082 | 78 | 7.2089 | |
| ckim-dragen | INDEL | I1_5 | map_l250_m1_e0 | * | 92.4528 | 92.4528 | 92.4528 | 95.9634 | 98 | 8 | 98 | 8 | 3 | 37.5000 | |
| gduggal-bwafb | INDEL | * | map_l250_m0_e0 | het | 92.4528 | 92.4528 | 92.4528 | 97.3042 | 49 | 4 | 49 | 4 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | map_l250_m0_e0 | het | 92.4528 | 92.4528 | 92.4528 | 97.6318 | 49 | 4 | 49 | 4 | 1 | 25.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.4526 | 86.3337 | 99.5050 | 31.4964 | 1573 | 249 | 1608 | 8 | 8 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.4522 | 91.6512 | 93.2674 | 90.5520 | 1976 | 180 | 1981 | 143 | 93 | 65.0350 | |
| ckim-vqsr | INDEL | D16_PLUS | map_siren | het | 92.4513 | 97.4359 | 87.9518 | 96.3127 | 76 | 2 | 73 | 10 | 2 | 20.0000 | |
| jpowers-varprowl | SNP | tv | HG002compoundhet | het | 92.4509 | 89.4714 | 95.6356 | 62.4569 | 4181 | 492 | 4273 | 195 | 18 | 9.2308 | |
| ghariani-varprowl | INDEL | I1_5 | map_siren | * | 92.4494 | 93.3444 | 91.5714 | 83.4764 | 2805 | 200 | 2803 | 258 | 121 | 46.8992 | |
| 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 | |
| jlack-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 92.4487 | 89.3386 | 95.7831 | 48.0438 | 905 | 108 | 954 | 42 | 37 | 88.0952 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.4479 | 95.7527 | 89.3636 | 86.9652 | 4058 | 180 | 4016 | 478 | 89 | 18.6192 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.4444 | 85.9504 | 100.0000 | 47.4960 | 312 | 51 | 325 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 92.4426 | 88.7097 | 96.5035 | 91.8681 | 275 | 35 | 276 | 10 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4417 | 95.1488 | 89.8844 | 58.8124 | 15632 | 797 | 15630 | 1759 | 720 | 40.9323 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 92.4416 | 88.7728 | 96.4267 | 49.8323 | 5266 | 666 | 3751 | 139 | 127 | 91.3669 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.4411 | 98.4169 | 87.1495 | 60.2600 | 373 | 6 | 373 | 55 | 54 | 98.1818 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | homalt | 92.4410 | 86.9919 | 98.6183 | 84.9532 | 428 | 64 | 571 | 8 | 6 | 75.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 92.4376 | 86.6059 | 99.1115 | 59.3014 | 9783 | 1513 | 9816 | 88 | 22 | 25.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l100_m1_e0 | het | 92.4370 | 93.2203 | 91.6667 | 91.4408 | 55 | 4 | 55 | 5 | 1 | 20.0000 | |
| gduggal-bwavard | SNP | tv | HG002compoundhet | homalt | 92.4344 | 86.2456 | 99.5802 | 40.9644 | 2922 | 466 | 2609 | 11 | 8 | 72.7273 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 92.4324 | 90.0000 | 95.0000 | 99.2404 | 18 | 2 | 19 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 92.4324 | 90.0000 | 95.0000 | 99.2424 | 18 | 2 | 19 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | ti | map_l150_m1_e0 | * | 92.4318 | 96.0278 | 89.0953 | 81.2252 | 18929 | 783 | 18751 | 2295 | 187 | 8.1482 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4301 | 93.6681 | 91.2243 | 68.7320 | 1287 | 87 | 1289 | 124 | 91 | 73.3871 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 92.4298 | 90.2778 | 94.6869 | 59.3991 | 520 | 56 | 499 | 28 | 9 | 32.1429 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e0 | homalt | 92.4285 | 87.0249 | 98.5475 | 81.2093 | 664 | 99 | 882 | 13 | 11 | 84.6154 | |
| rpoplin-dv42 | INDEL | I6_15 | map_siren | het | 92.4188 | 89.5105 | 95.5224 | 83.4568 | 128 | 15 | 128 | 6 | 6 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 92.4174 | 87.2960 | 98.1771 | 57.2145 | 749 | 109 | 754 | 14 | 4 | 28.5714 | |