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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74751-74800 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.5725 | 99.8788 | 95.3704 | 71.6070 | 824 | 1 | 824 | 40 | 39 | 97.5000 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m1_e0 | het | 79.1153 | 74.3590 | 84.5216 | 89.5868 | 899 | 310 | 901 | 165 | 39 | 23.6364 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e0 | het | 79.5047 | 74.8408 | 84.7885 | 89.8548 | 940 | 316 | 942 | 169 | 39 | 23.0769 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | * | 51.7241 | 45.4545 | 60.0000 | 94.3966 | 80 | 96 | 78 | 52 | 39 | 75.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1773 | 98.9437 | 99.4120 | 58.5572 | 7306 | 78 | 7270 | 43 | 39 | 90.6977 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0046 | 95.1501 | 98.9328 | 56.4186 | 3708 | 189 | 3708 | 40 | 39 | 97.5000 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8169 | 99.8526 | 99.7812 | 60.4097 | 55549 | 82 | 55631 | 122 | 39 | 31.9672 | |
| ckim-dragen | SNP | ti | map_l125_m0_e0 | * | 98.1359 | 98.7776 | 97.5025 | 75.7277 | 12606 | 156 | 12610 | 323 | 39 | 12.0743 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 46.9083 | 32.3849 | 85.0498 | 32.2072 | 387 | 808 | 256 | 45 | 39 | 86.6667 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e0 | * | 93.4957 | 91.3079 | 95.7910 | 84.8783 | 3372 | 321 | 3391 | 149 | 39 | 26.1745 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 88.3800 | 79.7888 | 99.0444 | 59.7268 | 14508 | 3675 | 14511 | 140 | 39 | 27.8571 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5573 | 99.3217 | 99.7940 | 54.6839 | 25187 | 172 | 25185 | 52 | 39 | 75.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 43.3731 | 29.1284 | 84.8837 | 60.6107 | 127 | 309 | 219 | 39 | 39 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 91.4107 | 85.7327 | 97.8942 | 35.5826 | 3984 | 663 | 1813 | 39 | 39 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 79.9416 | 70.8547 | 91.7021 | 52.3810 | 1799 | 740 | 431 | 39 | 39 | 100.0000 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e1 | * | 97.8266 | 97.4959 | 98.1596 | 89.9363 | 7787 | 200 | 7787 | 146 | 39 | 26.7123 | |
| eyeh-varpipe | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 65.6489 | 85.9893 | 0 | 0 | 86 | 45 | 39 | 86.6667 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | hetalt | 71.6240 | 56.8366 | 96.8118 | 75.7679 | 981 | 745 | 1245 | 41 | 39 | 95.1220 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 39.8487 | 25.0685 | 97.0961 | 38.8155 | 549 | 1641 | 1304 | 39 | 39 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.6262 | 69.9242 | 98.0323 | 76.4744 | 2490 | 1071 | 2491 | 50 | 39 | 78.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002compoundhet | hetalt | 84.6945 | 73.7471 | 99.4587 | 70.0372 | 7534 | 2682 | 7533 | 41 | 39 | 95.1220 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0949 | 95.8388 | 73.3424 | 87.1802 | 1451 | 63 | 1073 | 390 | 39 | 10.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 79.5890 | 75.9398 | 83.6066 | 81.9793 | 202 | 64 | 204 | 40 | 39 | 97.5000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 80.1689 | 87.7049 | 73.8255 | 66.0592 | 107 | 15 | 110 | 39 | 39 | 100.0000 | |
| jpowers-varprowl | SNP | tv | map_l100_m1_e0 | homalt | 99.1519 | 98.9052 | 99.3999 | 66.3513 | 8944 | 99 | 8944 | 54 | 39 | 72.2222 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0535 | 95.4837 | 98.6758 | 53.2615 | 3721 | 176 | 3726 | 50 | 39 | 78.0000 | |
| jmaeng-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 96.4037 | 93.4123 | 99.5930 | 58.4493 | 9543 | 673 | 9543 | 39 | 39 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3724 | 94.0724 | 98.7877 | 56.0658 | 3666 | 231 | 3667 | 45 | 39 | 86.6667 | |
| jmaeng-gatk | SNP | * | HG002complexvar | homalt | 99.3008 | 98.6263 | 99.9845 | 20.0307 | 284610 | 3964 | 284586 | 44 | 39 | 88.6364 | |
| jmaeng-gatk | SNP | * | HG002compoundhet | * | 99.3502 | 98.8847 | 99.8202 | 41.8705 | 25534 | 288 | 25531 | 46 | 39 | 84.7826 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | het | 84.2606 | 74.8343 | 96.4038 | 89.9614 | 14455 | 4861 | 14449 | 539 | 39 | 7.2356 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e0 | het | 84.8178 | 75.7016 | 96.4302 | 90.4936 | 15241 | 4892 | 15235 | 564 | 39 | 6.9149 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | het | 88.5520 | 81.2876 | 97.2421 | 86.2223 | 14848 | 3418 | 14844 | 421 | 39 | 9.2637 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e0 | het | 88.8720 | 81.8288 | 97.2418 | 86.9822 | 15446 | 3430 | 15442 | 438 | 39 | 8.9041 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | het | 88.9909 | 82.0139 | 97.2654 | 86.9813 | 15654 | 3433 | 15650 | 440 | 39 | 8.8636 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4583 | 97.2091 | 99.7401 | 57.5217 | 17659 | 507 | 17653 | 46 | 39 | 84.7826 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4583 | 97.2091 | 99.7401 | 57.5217 | 17659 | 507 | 17653 | 46 | 39 | 84.7826 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1940 | 95.0822 | 99.4017 | 40.6176 | 6477 | 335 | 6480 | 39 | 39 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1709 | 93.1280 | 99.4195 | 32.5705 | 6681 | 493 | 6679 | 39 | 39 | 100.0000 | |
| jli-custom | SNP | * | map_l125_m0_e0 | het | 98.5516 | 98.0575 | 99.0508 | 71.6081 | 12418 | 246 | 12418 | 119 | 39 | 32.7731 | |
| jlack-gatk | SNP | ti | map_l250_m1_e0 | het | 91.8885 | 98.2817 | 86.2762 | 93.7627 | 2917 | 51 | 2917 | 464 | 39 | 8.4052 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 91.4168 | 88.8435 | 94.1435 | 54.4059 | 653 | 82 | 643 | 40 | 39 | 97.5000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7382 | 91.0643 | 98.7211 | 59.2029 | 3628 | 356 | 3628 | 47 | 39 | 82.9787 | |
| hfeng-pmm2 | INDEL | I6_15 | * | het | 98.7550 | 98.1162 | 99.4021 | 57.6463 | 9844 | 189 | 9809 | 59 | 39 | 66.1017 | |
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | * | 99.3629 | 99.4529 | 99.2732 | 71.9477 | 45079 | 248 | 45073 | 330 | 39 | 11.8182 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e0 | * | 99.3766 | 99.4649 | 99.2885 | 73.4867 | 46473 | 250 | 46467 | 333 | 39 | 11.7117 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e1 | * | 99.3819 | 99.4704 | 99.2936 | 73.5231 | 46952 | 250 | 46946 | 334 | 39 | 11.6766 | |
| hfeng-pmm2 | SNP | ti | map_siren | * | 99.6860 | 99.6642 | 99.7079 | 54.6933 | 100018 | 337 | 100003 | 293 | 39 | 13.3106 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.2208 | 91.8058 | 96.7664 | 60.5925 | 1210 | 108 | 1197 | 40 | 39 | 97.5000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6068 | 96.9183 | 98.3051 | 69.3951 | 3428 | 109 | 3422 | 59 | 39 | 66.1017 | |