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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61151-61200 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | I1_5 | HG002complexvar | homalt | 98.3809 | 97.8212 | 98.9471 | 49.0711 | 13155 | 293 | 13156 | 140 | 134 | 95.7143 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 82.1997 | 70.3008 | 98.9474 | 87.7261 | 187 | 79 | 188 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_siren | hetalt | 96.9072 | 94.9495 | 98.9474 | 76.0101 | 94 | 5 | 94 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.8591 | 94.8571 | 98.9474 | 33.0986 | 332 | 18 | 376 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | I1_5 | map_l125_m0_e0 | het | 98.4293 | 97.9167 | 98.9474 | 87.9975 | 188 | 4 | 188 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 84.6847 | 74.0157 | 98.9474 | 35.8108 | 94 | 33 | 94 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m0_e0 | het | 95.3831 | 92.0666 | 98.9474 | 74.9605 | 940 | 81 | 940 | 10 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | * | map_l100_m1_e0 | homalt | 95.3105 | 91.9315 | 98.9474 | 78.3927 | 1128 | 99 | 1128 | 12 | 8 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.4293 | 97.9167 | 98.9474 | 40.2516 | 188 | 4 | 188 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.4315 | 92.1569 | 98.9474 | 60.0840 | 94 | 8 | 94 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | segdup | hetalt | 85.5736 | 75.3846 | 98.9474 | 95.6039 | 98 | 32 | 94 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_siren | hetalt | 96.9072 | 94.9495 | 98.9474 | 74.3243 | 94 | 5 | 94 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | map_l250_m1_e0 | homalt | 92.1569 | 86.2385 | 98.9474 | 95.6262 | 94 | 15 | 94 | 1 | 0 | 0.0000 | |
| ckim-dragen | INDEL | * | map_l150_m2_e0 | homalt | 98.5364 | 98.1289 | 98.9474 | 89.1453 | 472 | 9 | 470 | 5 | 4 | 80.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.9234 | 93.0786 | 98.9476 | 63.4393 | 4653 | 346 | 4607 | 49 | 36 | 73.4694 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.9234 | 93.0786 | 98.9476 | 63.4393 | 4653 | 346 | 4607 | 49 | 36 | 73.4694 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2980 | 99.6507 | 98.9479 | 58.0370 | 17117 | 60 | 17116 | 182 | 35 | 19.2308 | |
| gduggal-bwafb | INDEL | * | map_l125_m2_e0 | homalt | 98.8189 | 98.6894 | 98.9488 | 87.4319 | 753 | 10 | 753 | 8 | 6 | 75.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.1500 | 99.3519 | 98.9488 | 79.8585 | 10731 | 70 | 10731 | 114 | 27 | 23.6842 | |
| 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 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.8304 | 69.7614 | 98.9490 | 45.2532 | 1871 | 811 | 1883 | 20 | 20 | 100.0000 | |
| ghariani-varprowl | SNP | * | segdup | homalt | 99.4257 | 99.9069 | 98.9491 | 89.5722 | 10733 | 10 | 10734 | 114 | 65 | 57.0175 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m1_e0 | het | 83.8279 | 72.7156 | 98.9492 | 92.4321 | 565 | 212 | 565 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9492 | 98.9492 | 98.9492 | 64.2902 | 565 | 6 | 565 | 6 | 6 | 100.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 89.0395 | 80.9340 | 98.9493 | 51.2411 | 5459 | 1286 | 5462 | 58 | 26 | 44.8276 | |
| raldana-dualsentieon | INDEL | * | map_siren | het | 98.4968 | 98.0479 | 98.9497 | 80.0579 | 4420 | 88 | 4428 | 47 | 5 | 10.6383 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 98.8330 | 98.7165 | 98.9498 | 87.7955 | 846 | 11 | 848 | 9 | 2 | 22.2222 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 60.8979 | 43.9836 | 98.9498 | 39.8596 | 859 | 1094 | 848 | 9 | 7 | 77.7778 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | het | 98.4237 | 97.9029 | 98.9501 | 74.4344 | 2661 | 57 | 2639 | 28 | 4 | 14.2857 | |
| jlack-gatk | INDEL | D1_5 | * | * | 99.0320 | 99.1134 | 98.9507 | 60.1218 | 145444 | 1301 | 145502 | 1543 | 552 | 35.7745 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2437 | 99.5383 | 98.9508 | 69.9567 | 1509 | 7 | 1509 | 16 | 2 | 12.5000 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e0 | homalt | 98.9515 | 98.9515 | 98.9515 | 85.7755 | 755 | 8 | 755 | 8 | 6 | 75.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | segdup | homalt | 99.3684 | 99.7886 | 98.9518 | 92.7375 | 472 | 1 | 472 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | map_l150_m2_e1 | * | 99.1408 | 99.3306 | 98.9518 | 77.9286 | 11425 | 77 | 11423 | 121 | 14 | 11.5702 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.9147 | 98.8772 | 98.9521 | 56.9032 | 1321 | 15 | 1322 | 14 | 5 | 35.7143 | |
| ckim-dragen | SNP | tv | map_l250_m1_e0 | homalt | 99.1254 | 99.2991 | 98.9523 | 83.2944 | 850 | 6 | 850 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0727 | 99.1931 | 98.9527 | 67.4865 | 13646 | 111 | 13605 | 144 | 128 | 88.8889 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0727 | 99.1931 | 98.9527 | 67.4865 | 13646 | 111 | 13605 | 144 | 128 | 88.8889 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m0_e0 | het | 98.4320 | 97.9167 | 98.9529 | 88.7448 | 188 | 4 | 189 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m0_e0 | het | 70.5224 | 54.7826 | 98.9529 | 96.3515 | 189 | 156 | 189 | 2 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | het | 86.0068 | 76.0563 | 98.9529 | 89.5285 | 378 | 119 | 378 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.3114 | 97.6783 | 98.9529 | 73.0099 | 589 | 14 | 567 | 6 | 2 | 33.3333 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2237 | 99.4958 | 98.9530 | 45.8387 | 6710 | 34 | 6710 | 71 | 1 | 1.4085 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | homalt | 98.2022 | 97.4623 | 98.9533 | 82.2165 | 1229 | 32 | 1229 | 13 | 9 | 69.2308 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.1535 | 79.4790 | 98.9534 | 72.5834 | 2746 | 709 | 2742 | 29 | 25 | 86.2069 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4084 | 97.8691 | 98.9537 | 78.0007 | 643 | 14 | 662 | 7 | 3 | 42.8571 | |
| dgrover-gatk | INDEL | I16_PLUS | * | het | 98.6296 | 98.3076 | 98.9537 | 76.0151 | 2672 | 46 | 2648 | 28 | 9 | 32.1429 | |
| ltrigg-rtg1 | INDEL | * | segdup | het | 98.2095 | 97.4761 | 98.9540 | 92.5626 | 1429 | 37 | 1419 | 15 | 2 | 13.3333 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e0 | het | 97.2343 | 95.5734 | 98.9540 | 80.5770 | 475 | 22 | 473 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m1_e0 | * | 96.8646 | 94.8617 | 98.9540 | 85.0251 | 480 | 26 | 473 | 5 | 1 | 20.0000 | |