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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83051-83100 / 86044 show all | |||||||||||||||
| gduggal-snapvard | SNP | * | map_l100_m2_e1 | * | 95.0240 | 96.5773 | 93.5198 | 74.9627 | 72179 | 2558 | 71162 | 4931 | 419 | 8.4973 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0763 | 92.8919 | 95.2913 | 68.9761 | 9357 | 716 | 9208 | 455 | 419 | 92.0879 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 37.1767 | 79.2899 | 24.2806 | 53.7438 | 134 | 35 | 135 | 421 | 420 | 99.7625 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2176 | 96.6110 | 97.8319 | 41.8109 | 19898 | 698 | 19899 | 441 | 420 | 95.2381 | |
| asubramanian-gatk | INDEL | D6_15 | * | * | 97.6552 | 97.1179 | 98.1984 | 55.4499 | 25340 | 752 | 25346 | 465 | 420 | 90.3226 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.4551 | 92.2272 | 86.8448 | 82.4170 | 6348 | 535 | 6760 | 1024 | 420 | 41.0156 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6356 | 99.6862 | 97.6069 | 67.4063 | 18109 | 57 | 18109 | 444 | 421 | 94.8198 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6356 | 99.6862 | 97.6069 | 67.4063 | 18109 | 57 | 18109 | 444 | 421 | 94.8198 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e0 | het | 85.0151 | 94.3650 | 77.3510 | 88.3503 | 2177 | 130 | 3101 | 908 | 421 | 46.3656 | |
| ckim-isaac | SNP | ti | HG002compoundhet | * | 88.7627 | 82.1776 | 96.4952 | 32.6037 | 14363 | 3115 | 14647 | 532 | 421 | 79.1353 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.4344 | 74.8652 | 80.1862 | 50.9245 | 1805 | 606 | 1809 | 447 | 421 | 94.1834 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 47.8252 | 42.6757 | 54.3879 | 44.5978 | 504 | 677 | 502 | 421 | 421 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 45.9790 | 97.3958 | 30.0926 | 23.2227 | 187 | 5 | 195 | 453 | 421 | 92.9360 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 60.0572 | 82.6840 | 47.1535 | 44.1989 | 382 | 80 | 381 | 427 | 422 | 98.8290 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.1127 | 99.7563 | 96.5225 | 56.9760 | 14734 | 36 | 14683 | 529 | 422 | 79.7732 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002compoundhet | * | 93.1478 | 91.3856 | 94.9793 | 37.0668 | 8020 | 756 | 8021 | 424 | 422 | 99.5283 | |
| raldana-dualsentieon | INDEL | I1_5 | * | * | 99.2891 | 98.9095 | 99.6717 | 56.6470 | 149021 | 1643 | 149065 | 491 | 422 | 85.9470 | |
| gduggal-bwavard | INDEL | * | map_siren | * | 91.0727 | 92.5911 | 89.6032 | 84.7790 | 6861 | 549 | 6843 | 794 | 423 | 53.2746 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 60.1249 | 45.9646 | 86.8947 | 58.2953 | 3138 | 3689 | 3176 | 479 | 423 | 88.3090 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 60.0456 | 65.5567 | 55.3892 | 58.1977 | 630 | 331 | 740 | 596 | 423 | 70.9732 | |
| ckim-isaac | INDEL | I1_5 | HG002complexvar | het | 94.3344 | 93.1277 | 95.5727 | 50.4026 | 16939 | 1250 | 16838 | 780 | 423 | 54.2308 | |
| gduggal-snapplat | INDEL | D1_5 | HG002compoundhet | hetalt | 57.5062 | 42.2964 | 89.7972 | 79.0515 | 4321 | 5895 | 4383 | 498 | 424 | 85.1406 | |
| ghariani-varprowl | INDEL | * | map_siren | het | 91.4200 | 98.4028 | 85.3626 | 87.1990 | 4436 | 72 | 4438 | 761 | 424 | 55.7162 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.7242 | 97.5630 | 97.8859 | 54.6627 | 24741 | 618 | 24632 | 532 | 424 | 79.6992 | |
| gduggal-bwaplat | INDEL | I1_5 | * | het | 93.5751 | 88.7894 | 98.9060 | 66.7915 | 70180 | 8861 | 70159 | 776 | 424 | 54.6392 | |
| ciseli-custom | SNP | tv | HG002compoundhet | homalt | 78.4375 | 94.1854 | 67.2014 | 50.7638 | 3191 | 197 | 3184 | 1554 | 424 | 27.2844 | |
| anovak-vg | INDEL | I1_5 | map_l100_m2_e0 | homalt | 67.4017 | 92.6554 | 52.9657 | 79.0814 | 492 | 39 | 509 | 452 | 424 | 93.8053 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 28.9696 | 23.8776 | 36.8222 | 43.6389 | 117 | 373 | 292 | 501 | 425 | 84.8303 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 38.2525 | 82.8402 | 24.8677 | 55.3895 | 140 | 29 | 141 | 426 | 425 | 99.7653 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.3753 | 83.0063 | 69.0293 | 65.5447 | 6980 | 1429 | 5639 | 2530 | 425 | 16.7984 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e1 | het | 84.8243 | 94.1101 | 77.2064 | 88.4817 | 2205 | 138 | 3123 | 922 | 425 | 46.0954 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5918 | 98.4368 | 98.7473 | 52.7193 | 36020 | 572 | 35944 | 456 | 425 | 93.2018 | |
| ckim-dragen | INDEL | I1_5 | HG002compoundhet | * | 94.8982 | 93.4283 | 96.4151 | 65.5477 | 11544 | 812 | 11538 | 429 | 425 | 99.0676 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.6745 | 93.2968 | 96.0934 | 44.0771 | 11079 | 796 | 11069 | 450 | 425 | 94.4444 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.5502 | 97.0814 | 81.3973 | 49.1056 | 1896 | 57 | 1899 | 434 | 426 | 98.1567 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 52.7266 | 38.0507 | 85.8309 | 70.4516 | 6106 | 9941 | 5785 | 955 | 426 | 44.6073 | |
| cchapple-custom | SNP | * | HG002complexvar | * | 99.8003 | 99.6796 | 99.9214 | 18.6735 | 751964 | 2417 | 749599 | 590 | 426 | 72.2034 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 81.7362 | 74.1234 | 91.0918 | 40.7803 | 4397 | 1535 | 4397 | 430 | 427 | 99.3023 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6279 | 96.5566 | 98.7231 | 49.8328 | 35332 | 1260 | 35256 | 456 | 427 | 93.6404 | |
| ndellapenna-hhga | INDEL | I6_15 | * | * | 96.5902 | 95.4921 | 97.7138 | 48.4477 | 23704 | 1119 | 23721 | 555 | 427 | 76.9369 | |
| gduggal-snapvard | INDEL | * | map_l100_m1_e0 | * | 85.9341 | 89.2080 | 82.8920 | 85.9643 | 3199 | 387 | 4414 | 911 | 427 | 46.8716 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 62.8725 | 52.4099 | 78.5542 | 50.1920 | 1033 | 938 | 1630 | 445 | 427 | 95.9551 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 62.8725 | 52.4099 | 78.5542 | 50.1920 | 1033 | 938 | 1630 | 445 | 427 | 95.9551 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 72.7782 | 64.6063 | 83.3167 | 68.8822 | 2519 | 1380 | 2512 | 503 | 427 | 84.8907 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2920 | 98.3891 | 98.1951 | 74.4975 | 29989 | 491 | 29542 | 543 | 428 | 78.8214 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2920 | 98.3891 | 98.1951 | 74.4975 | 29989 | 491 | 29542 | 543 | 428 | 78.8214 | |
| asubramanian-gatk | INDEL | I6_15 | * | * | 96.7639 | 95.5082 | 98.0531 | 53.5929 | 23708 | 1115 | 23721 | 471 | 428 | 90.8705 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6574 | 99.7082 | 97.6284 | 65.7023 | 18113 | 53 | 18113 | 440 | 428 | 97.2727 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6574 | 99.7082 | 97.6284 | 65.7023 | 18113 | 53 | 18113 | 440 | 428 | 97.2727 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.5224 | 99.6844 | 91.6941 | 50.1544 | 4738 | 15 | 4736 | 429 | 428 | 99.7669 | |