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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10301-10350 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 67.9381 | 51.9442 | 98.1629 | 49.9600 | 1229 | 1137 | 1229 | 23 | 22 | 95.6522 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9353 | 96.3590 | 99.5640 | 26.8986 | 5240 | 198 | 5252 | 23 | 22 | 95.6522 | |
| astatham-gatk | SNP | * | HG002compoundhet | het | 98.6981 | 97.5878 | 99.8340 | 46.2177 | 13836 | 342 | 13834 | 23 | 22 | 95.6522 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.2356 | 100.0000 | 89.0995 | 67.4383 | 188 | 0 | 188 | 23 | 22 | 95.6522 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0298 | 86.3583 | 98.4987 | 30.6787 | 1475 | 233 | 1509 | 23 | 22 | 95.6522 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 92.8089 | 90.2940 | 95.4680 | 54.0308 | 1935 | 208 | 1938 | 92 | 88 | 95.6522 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.3229 | 98.3425 | 83.5125 | 84.0206 | 356 | 6 | 233 | 46 | 44 | 95.6522 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | hetalt | 60.2641 | 50.3679 | 75.0000 | 58.1818 | 616 | 607 | 207 | 69 | 66 | 95.6522 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 74.5996 | 62.5114 | 92.4837 | 50.4052 | 1369 | 821 | 283 | 23 | 22 | 95.6522 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 68.4689 | 57.9334 | 83.6879 | 54.1463 | 1026 | 745 | 236 | 46 | 44 | 95.6522 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 83.2219 | 72.1186 | 98.3665 | 35.2346 | 1314 | 508 | 1385 | 23 | 22 | 95.6522 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9829 | 96.4509 | 99.5644 | 27.1624 | 5245 | 193 | 5257 | 23 | 22 | 95.6522 | |
| dgrover-gatk | INDEL | I16_PLUS | * | homalt | 97.7415 | 99.8078 | 95.7591 | 72.2497 | 1558 | 3 | 1558 | 69 | 66 | 95.6522 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0855 | 99.3885 | 98.7844 | 71.5296 | 3738 | 23 | 3738 | 46 | 44 | 95.6522 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0855 | 99.3885 | 98.7844 | 71.5296 | 3738 | 23 | 3738 | 46 | 44 | 95.6522 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6216 | 99.8758 | 99.3687 | 35.8426 | 7238 | 9 | 7241 | 46 | 44 | 95.6522 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2411 | 99.0960 | 99.3867 | 70.6527 | 3727 | 34 | 3727 | 23 | 22 | 95.6522 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2411 | 99.0960 | 99.3867 | 70.6527 | 3727 | 34 | 3727 | 23 | 22 | 95.6522 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5485 | 99.7455 | 99.3523 | 71.7771 | 3528 | 9 | 3528 | 23 | 22 | 95.6522 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 33.5783 | 32.0401 | 35.2715 | 61.6614 | 1949 | 4134 | 1929 | 3540 | 3386 | 95.6497 | |
| mlin-fermikit | SNP | * | map_l100_m2_e0 | homalt | 74.2855 | 67.9468 | 81.9285 | 52.5634 | 18701 | 8822 | 18701 | 4125 | 3945 | 95.6364 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 91.8726 | 90.2567 | 93.5475 | 72.9167 | 3270 | 353 | 3320 | 229 | 219 | 95.6332 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.3770 | 92.9127 | 87.9760 | 55.1468 | 12782 | 975 | 12731 | 1740 | 1664 | 95.6322 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.3770 | 92.9127 | 87.9760 | 55.1468 | 12782 | 975 | 12731 | 1740 | 1664 | 95.6322 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 90.8247 | 87.1204 | 94.8579 | 42.0846 | 2381 | 352 | 2103 | 114 | 109 | 95.6140 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.3028 | 95.2767 | 97.3513 | 64.8567 | 4236 | 210 | 4190 | 114 | 109 | 95.6140 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1535 | 96.7800 | 97.5299 | 57.5288 | 17102 | 569 | 17097 | 433 | 414 | 95.6120 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1535 | 96.7800 | 97.5299 | 57.5288 | 17102 | 569 | 17097 | 433 | 414 | 95.6120 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | * | 97.1251 | 95.8153 | 98.4712 | 65.0788 | 11723 | 512 | 11723 | 182 | 174 | 95.6044 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.0250 | 99.3414 | 96.7430 | 63.3526 | 2715 | 18 | 2703 | 91 | 87 | 95.6044 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 74.6805 | 73.6967 | 75.6909 | 58.8837 | 4962 | 1771 | 4957 | 1592 | 1522 | 95.6030 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 77.4599 | 71.6987 | 84.2278 | 56.4520 | 11527 | 4550 | 21313 | 3991 | 3815 | 95.5901 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 77.4599 | 71.6987 | 84.2278 | 56.4520 | 11527 | 4550 | 21313 | 3991 | 3815 | 95.5901 | |
| eyeh-varpipe | INDEL | I1_5 | HG002compoundhet | hetalt | 60.8513 | 43.9832 | 98.7067 | 61.4827 | 4916 | 6261 | 5190 | 68 | 65 | 95.5882 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.0196 | 84.7280 | 85.3132 | 69.0508 | 405 | 73 | 395 | 68 | 65 | 95.5882 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.5547 | 95.8398 | 93.3037 | 33.3744 | 622 | 27 | 2522 | 181 | 173 | 95.5801 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9360 | 95.1324 | 98.8093 | 46.5673 | 13114 | 671 | 13112 | 158 | 151 | 95.5696 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002compoundhet | * | 96.3303 | 94.1081 | 98.6599 | 63.2057 | 11628 | 728 | 11632 | 158 | 151 | 95.5696 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1903 | 92.5366 | 93.8532 | 64.0267 | 5629 | 454 | 5512 | 361 | 345 | 95.5679 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7709 | 99.7523 | 97.8086 | 67.6045 | 18121 | 45 | 18121 | 406 | 388 | 95.5665 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7709 | 99.7523 | 97.8086 | 67.6045 | 18121 | 45 | 18121 | 406 | 388 | 95.5665 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4732 | 98.9378 | 98.0130 | 65.7049 | 12388 | 133 | 12233 | 248 | 237 | 95.5645 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9613 | 99.3365 | 98.5889 | 49.3810 | 3144 | 21 | 3144 | 45 | 43 | 95.5556 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1601 | 96.8618 | 99.4937 | 40.9343 | 17686 | 573 | 17687 | 90 | 86 | 95.5556 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 65.1949 | 54.6559 | 80.7692 | 61.1940 | 135 | 112 | 189 | 45 | 43 | 95.5556 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6494 | 97.0713 | 98.2344 | 36.6573 | 9181 | 277 | 10015 | 180 | 172 | 95.5556 | |