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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6501-6550 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 27.7333 | 20.3358 | 43.5897 | 65.7895 | 109 | 427 | 102 | 132 | 121 | 91.6667 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.2462 | 89.4980 | 77.8108 | 88.9364 | 1355 | 159 | 1308 | 373 | 121 | 32.4397 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 61.4597 | 44.8804 | 97.4636 | 72.8689 | 2665 | 3273 | 4957 | 129 | 121 | 93.7984 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.6479 | 73.1252 | 97.7082 | 43.0315 | 5246 | 1928 | 5244 | 123 | 121 | 98.3740 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 51.8064 | 59.5808 | 45.8266 | 64.9803 | 597 | 405 | 571 | 675 | 121 | 17.9259 | |
| 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 | * | HG002complexvar | * | 99.1357 | 98.4949 | 99.7850 | 57.1428 | 75780 | 1158 | 75642 | 163 | 121 | 74.2331 | |
| rpoplin-dv42 | SNP | ti | map_l100_m2_e1 | * | 99.4666 | 99.2947 | 99.6390 | 64.7230 | 49136 | 349 | 49129 | 178 | 121 | 67.9775 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.7864 | 99.1544 | 98.4212 | 63.6442 | 8325 | 71 | 8291 | 133 | 121 | 90.9774 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5086 | 99.3568 | 97.6748 | 72.1675 | 5561 | 36 | 5545 | 132 | 121 | 91.6667 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 38.1138 | 46.0000 | 32.5359 | 39.0671 | 23 | 27 | 68 | 141 | 121 | 85.8156 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 55.4070 | 49.8753 | 62.3188 | 47.9245 | 200 | 201 | 258 | 156 | 121 | 77.5641 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0123 | 98.3920 | 97.6356 | 72.4102 | 5507 | 90 | 5492 | 133 | 121 | 90.9774 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4891 | 99.5708 | 99.4077 | 75.9619 | 21805 | 94 | 21817 | 130 | 120 | 92.3077 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6226 | 99.6991 | 99.5463 | 74.7408 | 33136 | 100 | 33130 | 151 | 120 | 79.4702 | |
| jpowers-varprowl | INDEL | I1_5 | map_siren | * | 92.9039 | 91.0815 | 94.8007 | 80.0152 | 2737 | 268 | 2735 | 150 | 120 | 80.0000 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e1 | * | 97.1894 | 97.0523 | 97.3269 | 78.1843 | 16166 | 491 | 16166 | 444 | 120 | 27.0270 | |
| cchapple-custom | INDEL | D1_5 | HG002compoundhet | het | 97.4821 | 96.0069 | 99.0033 | 65.2258 | 1659 | 69 | 12417 | 125 | 120 | 96.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.4118 | 79.2549 | 90.2866 | 33.4746 | 936 | 245 | 1134 | 122 | 120 | 98.3607 | |
| ckim-dragen | INDEL | D16_PLUS | HG002compoundhet | * | 94.5882 | 94.4468 | 94.7301 | 35.7379 | 2211 | 130 | 2211 | 123 | 120 | 97.5610 | |
| ckim-dragen | SNP | * | map_l100_m2_e1 | het | 98.1019 | 99.2281 | 97.0009 | 73.9476 | 46536 | 362 | 46542 | 1439 | 120 | 8.3391 | |
| ckim-dragen | SNP | * | map_l125_m2_e0 | * | 98.4092 | 99.0947 | 97.7332 | 74.8209 | 46300 | 423 | 46306 | 1074 | 120 | 11.1732 | |
| ckim-dragen | SNP | * | map_l125_m2_e1 | * | 98.4159 | 99.0996 | 97.7415 | 74.8940 | 46777 | 425 | 46783 | 1081 | 120 | 11.1008 | |
| cchapple-custom | SNP | * | map_l150_m0_e0 | * | 95.8209 | 95.5951 | 96.0478 | 81.9455 | 11502 | 530 | 11495 | 473 | 120 | 25.3700 | |
| cchapple-custom | SNP | ti | map_l125_m0_e0 | * | 96.3333 | 95.8549 | 96.8166 | 76.6174 | 12233 | 529 | 12226 | 402 | 120 | 29.8507 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9842 | 99.2753 | 98.6948 | 48.1764 | 9452 | 69 | 9452 | 125 | 120 | 96.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.7577 | 97.7169 | 82.9975 | 80.7748 | 856 | 20 | 659 | 135 | 120 | 88.8889 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 89.9543 | 98.1728 | 83.0056 | 50.9979 | 591 | 11 | 591 | 121 | 120 | 99.1736 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | het | 79.6121 | 75.4140 | 84.3052 | 55.5219 | 1776 | 579 | 1735 | 323 | 120 | 37.1517 | |
| egarrison-hhga | INDEL | I1_5 | HG002complexvar | * | 98.9362 | 98.5823 | 99.2928 | 54.0549 | 32890 | 473 | 32852 | 234 | 120 | 51.2821 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.5286 | 88.9672 | 94.2418 | 58.4475 | 2145 | 266 | 2144 | 131 | 120 | 91.6031 | |
| rpoplin-dv42 | SNP | * | map_l125_m0_e0 | * | 98.7955 | 98.5969 | 98.9950 | 72.9367 | 19113 | 272 | 19110 | 194 | 120 | 61.8557 | |
| rpoplin-dv42 | SNP | ti | map_l100_m2_e0 | * | 99.4660 | 99.2933 | 99.6392 | 64.7198 | 48615 | 346 | 48608 | 176 | 120 | 68.1818 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8169 | 98.9467 | 98.6874 | 61.3838 | 10991 | 117 | 10977 | 146 | 120 | 82.1918 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.7908 | 73.3408 | 97.7136 | 42.2636 | 5216 | 1896 | 5214 | 122 | 120 | 98.3607 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 77.6657 | 65.6975 | 94.9658 | 82.9333 | 9038 | 4719 | 9036 | 479 | 120 | 25.0522 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 77.6657 | 65.6975 | 94.9658 | 82.9333 | 9038 | 4719 | 9036 | 479 | 120 | 25.0522 | |
| eyeh-varpipe | SNP | tv | HG002complexvar | * | 99.7847 | 99.8883 | 99.6813 | 20.5762 | 245880 | 275 | 235205 | 752 | 120 | 15.9574 | |
| gduggal-snapvard | SNP | tv | map_l125_m1_e0 | * | 93.0563 | 96.9343 | 89.4767 | 78.3907 | 15525 | 491 | 15475 | 1820 | 120 | 6.5934 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 29.3005 | 21.5292 | 45.8515 | 79.6625 | 107 | 390 | 105 | 124 | 119 | 95.9677 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 62.9334 | 53.3333 | 76.7483 | 71.4713 | 440 | 385 | 439 | 133 | 119 | 89.4737 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 29.0805 | 20.8955 | 47.8070 | 73.7629 | 112 | 424 | 109 | 119 | 119 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 62.9334 | 53.3333 | 76.7483 | 71.4713 | 440 | 385 | 439 | 133 | 119 | 89.4737 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 18.7853 | 15.3926 | 24.0964 | 85.0898 | 149 | 819 | 240 | 756 | 119 | 15.7407 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.9362 | 87.5375 | 65.5063 | 57.1453 | 1166 | 166 | 1656 | 872 | 119 | 13.6468 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 23.0412 | 16.2978 | 39.3035 | 77.1850 | 81 | 416 | 79 | 122 | 119 | 97.5410 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e0 | * | 97.1791 | 97.0465 | 97.3121 | 78.1370 | 16002 | 487 | 16002 | 442 | 119 | 26.9231 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 84.4765 | 97.7716 | 74.3644 | 48.9730 | 351 | 8 | 351 | 121 | 119 | 98.3471 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | * | 97.5405 | 97.4499 | 97.6314 | 70.8962 | 6611 | 173 | 6595 | 160 | 119 | 74.3750 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.8289 | 96.6593 | 96.9990 | 75.1800 | 4832 | 167 | 4816 | 149 | 119 | 79.8658 | |