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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14351-14400 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4986 | 91.8437 | 95.2143 | 47.2808 | 10202 | 906 | 16374 | 823 | 701 | 85.1762 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | * | 81.2952 | 70.0678 | 96.8072 | 87.0114 | 22318 | 9534 | 22073 | 728 | 620 | 85.1648 | |
| gduggal-bwaplat | INDEL | * | * | homalt | 94.8233 | 90.5786 | 99.4855 | 59.5744 | 113379 | 11793 | 113311 | 586 | 499 | 85.1536 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 53.0813 | 57.1912 | 49.5224 | 53.3105 | 676 | 506 | 674 | 687 | 585 | 85.1528 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.7995 | 97.9339 | 99.6807 | 49.2515 | 31331 | 661 | 31528 | 101 | 86 | 85.1485 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 79.4494 | 75.6494 | 83.6513 | 75.4184 | 1631 | 525 | 1929 | 377 | 321 | 85.1459 | |
| astatham-gatk | INDEL | * | HG002complexvar | * | 99.4827 | 99.2916 | 99.6745 | 58.3541 | 76393 | 545 | 76257 | 249 | 212 | 85.1406 | |
| gduggal-snapplat | INDEL | D1_5 | HG002compoundhet | hetalt | 57.5062 | 42.2964 | 89.7972 | 79.0515 | 4321 | 5895 | 4383 | 498 | 424 | 85.1406 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2346 | 98.8722 | 93.7341 | 83.8197 | 1315 | 15 | 1107 | 74 | 63 | 85.1351 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 29.2224 | 22.4601 | 41.8109 | 44.2465 | 619 | 2137 | 628 | 874 | 744 | 85.1259 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7311 | 98.5279 | 96.9471 | 62.1515 | 15528 | 232 | 15370 | 484 | 412 | 85.1240 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6609 | 96.7085 | 98.6322 | 60.0245 | 63200 | 2151 | 78454 | 1088 | 926 | 85.1103 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6609 | 96.7085 | 98.6322 | 60.0245 | 63200 | 2151 | 78454 | 1088 | 926 | 85.1103 | |
| mlin-fermikit | INDEL | D16_PLUS | * | * | 87.3801 | 85.9375 | 88.8720 | 69.7132 | 5830 | 954 | 5846 | 732 | 623 | 85.1093 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.9131 | 95.6458 | 96.1820 | 79.8889 | 1296 | 59 | 1184 | 47 | 40 | 85.1064 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.7207 | 98.0134 | 95.4617 | 70.0763 | 17465 | 354 | 17080 | 812 | 691 | 85.0985 | |
| gduggal-bwafb | SNP | * | HG002complexvar | homalt | 99.8832 | 99.8222 | 99.9441 | 19.8833 | 288062 | 513 | 288090 | 161 | 137 | 85.0932 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 54.8241 | 40.1571 | 86.3699 | 66.0570 | 3731 | 5560 | 3783 | 597 | 508 | 85.0921 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 54.8241 | 40.1571 | 86.3699 | 66.0570 | 3731 | 5560 | 3783 | 597 | 508 | 85.0921 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.7400 | 74.7573 | 90.1615 | 62.2924 | 616 | 208 | 614 | 67 | 57 | 85.0746 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.5437 | 77.6835 | 97.6853 | 56.4907 | 6499 | 1867 | 6499 | 154 | 131 | 85.0649 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.8852 | 91.7343 | 90.0517 | 74.0181 | 1243 | 112 | 1394 | 154 | 131 | 85.0649 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 86.3639 | 77.4336 | 97.6228 | 60.1470 | 4399 | 1282 | 4394 | 107 | 91 | 85.0467 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.9828 | 69.1181 | 97.7650 | 72.5426 | 12556 | 5610 | 12554 | 287 | 244 | 85.0174 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.9828 | 69.1181 | 97.7650 | 72.5426 | 12556 | 5610 | 12554 | 287 | 244 | 85.0174 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.2868 | 95.8815 | 98.7340 | 45.9174 | 14015 | 602 | 39539 | 507 | 431 | 85.0099 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 56.0188 | 50.6667 | 62.6353 | 47.3349 | 532 | 518 | 984 | 587 | 499 | 85.0085 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.0857 | 96.0106 | 98.1851 | 47.3483 | 1083 | 45 | 1082 | 20 | 17 | 85.0000 | |
| asubramanian-gatk | SNP | tv | * | homalt | 98.7491 | 97.5342 | 99.9946 | 20.2324 | 367824 | 9299 | 367810 | 20 | 17 | 85.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.1176 | 95.7529 | 92.5373 | 60.1190 | 248 | 11 | 248 | 20 | 17 | 85.0000 | |
| cchapple-custom | SNP | tv | * | homalt | 99.9396 | 99.8847 | 99.9947 | 18.4432 | 376688 | 435 | 376084 | 20 | 17 | 85.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002complexvar | het | 95.9519 | 92.8205 | 99.3019 | 57.0271 | 2896 | 224 | 2845 | 20 | 17 | 85.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002complexvar | homalt | 99.8625 | 99.8736 | 99.8514 | 52.0252 | 13431 | 17 | 13435 | 20 | 17 | 85.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4779 | 95.9039 | 99.1043 | 49.4530 | 6626 | 283 | 6639 | 60 | 51 | 85.0000 | |
| jmaeng-gatk | SNP | tv | HG002compoundhet | * | 99.2678 | 98.7672 | 99.7735 | 49.6292 | 8813 | 110 | 8810 | 20 | 17 | 85.0000 | |
| eyeh-varpipe | INDEL | * | map_l100_m0_e0 | homalt | 96.1789 | 96.8566 | 95.5107 | 86.4425 | 493 | 16 | 851 | 40 | 34 | 85.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 73.7322 | 58.7029 | 99.1053 | 30.0313 | 4752 | 3343 | 4431 | 40 | 34 | 85.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.6667 | 93.6170 | 89.7959 | 66.0312 | 176 | 12 | 176 | 20 | 17 | 85.0000 | |
| ckim-vqsr | INDEL | D6_15 | * | het | 98.8252 | 99.3703 | 98.2861 | 64.1967 | 11519 | 73 | 11469 | 200 | 170 | 85.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.1319 | 71.6717 | 98.9545 | 46.3244 | 1895 | 749 | 1893 | 20 | 17 | 85.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.3161 | 87.6212 | 99.8027 | 73.3610 | 10122 | 1430 | 10118 | 20 | 17 | 85.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.3161 | 87.6212 | 99.8027 | 73.3610 | 10122 | 1430 | 10118 | 20 | 17 | 85.0000 | |
| gduggal-snapplat | INDEL | I6_15 | HG002complexvar | hetalt | 51.2055 | 35.5683 | 91.3793 | 60.4433 | 435 | 788 | 424 | 40 | 34 | 85.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 90.2790 | 82.8456 | 99.1780 | 30.0661 | 9200 | 1905 | 2413 | 20 | 17 | 85.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 89.0110 | 82.5328 | 96.5928 | 74.6983 | 567 | 120 | 567 | 20 | 17 | 85.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.0210 | 92.7552 | 83.7467 | 49.6639 | 2535 | 198 | 2195 | 426 | 362 | 84.9765 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 42.6673 | 30.3609 | 71.7500 | 71.1191 | 286 | 656 | 287 | 113 | 96 | 84.9558 | |
| cchapple-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.7884 | 98.3155 | 99.2658 | 69.8244 | 92858 | 1591 | 106946 | 791 | 672 | 84.9558 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7831 | 96.8990 | 98.6834 | 73.3610 | 62433 | 1998 | 63262 | 844 | 717 | 84.9526 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 76.5556 | 82.5342 | 71.3846 | 62.2751 | 723 | 153 | 464 | 186 | 158 | 84.9462 | |