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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2851-2900 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.3424 | 98.3065 | 92.5518 | 69.4000 | 5747 | 99 | 5716 | 460 | 444 | 96.5217 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.3424 | 98.3065 | 92.5518 | 69.4000 | 5747 | 99 | 5716 | 460 | 444 | 96.5217 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e1 | * | 85.8099 | 88.8445 | 82.9757 | 86.6598 | 3337 | 419 | 4601 | 944 | 443 | 46.9280 | |
| anovak-vg | INDEL | D6_15 | HG002complexvar | het | 77.7392 | 75.0641 | 80.6119 | 50.1246 | 2342 | 778 | 2582 | 621 | 443 | 71.3366 | |
| qzeng-custom | SNP | ti | map_l125_m2_e1 | * | 83.3343 | 72.6815 | 97.6462 | 82.9373 | 22218 | 8351 | 22070 | 532 | 443 | 83.2707 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.4780 | 96.5462 | 96.4099 | 50.7305 | 19176 | 686 | 28090 | 1046 | 443 | 42.3518 | |
| cchapple-custom | SNP | ti | * | het | 99.8339 | 99.8795 | 99.7883 | 21.7295 | 1280346 | 1545 | 1280384 | 2716 | 443 | 16.3108 | |
| gduggal-snapplat | SNP | ti | HG002compoundhet | * | 85.7906 | 91.8526 | 80.4793 | 50.9850 | 16054 | 1424 | 16120 | 3910 | 442 | 11.3043 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0945 | 98.9337 | 99.2558 | 72.1244 | 63744 | 687 | 63755 | 478 | 442 | 92.4686 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9540 | 95.2267 | 96.6924 | 48.5132 | 13127 | 658 | 13126 | 449 | 442 | 98.4410 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 33.4409 | 22.7870 | 62.8044 | 47.2074 | 260 | 881 | 748 | 443 | 442 | 99.7743 | |
| egarrison-hhga | INDEL | I1_5 | * | * | 99.2965 | 99.0761 | 99.5179 | 56.5802 | 149272 | 1392 | 149236 | 723 | 442 | 61.1342 | |
| jpowers-varprowl | SNP | * | map_siren | * | 98.5825 | 98.3751 | 98.7907 | 60.8110 | 143852 | 2376 | 143855 | 1761 | 441 | 25.0426 | |
| jlack-gatk | SNP | * | * | het | 99.5639 | 99.9321 | 99.1985 | 27.0831 | 1872315 | 1272 | 1872190 | 15127 | 441 | 2.9153 | |
| qzeng-custom | SNP | ti | map_l125_m2_e0 | * | 83.2073 | 72.4998 | 97.6254 | 82.9474 | 21937 | 8321 | 21790 | 530 | 441 | 83.2075 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9684 | 93.9086 | 71.1625 | 61.2108 | 1110 | 72 | 1108 | 449 | 440 | 97.9955 | |
| jpowers-varprowl | INDEL | * | map_siren | * | 91.5569 | 90.4453 | 92.6961 | 81.8403 | 6702 | 708 | 6701 | 528 | 440 | 83.3333 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.1726 | 72.6852 | 64.1876 | 28.7853 | 157 | 59 | 794 | 443 | 440 | 99.3228 | |
| gduggal-bwaplat | SNP | tv | * | * | 98.5599 | 97.4574 | 99.6876 | 31.4101 | 945035 | 24655 | 945254 | 2962 | 440 | 14.8548 | |
| rpoplin-dv42 | INDEL | * | HG002complexvar | * | 98.9923 | 98.6301 | 99.3571 | 63.4999 | 75884 | 1054 | 75884 | 491 | 440 | 89.6130 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e0 | * | 86.0203 | 89.1958 | 83.0632 | 86.5245 | 3294 | 399 | 4561 | 930 | 439 | 47.2043 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 81.2017 | 96.8037 | 69.9308 | 71.0611 | 636 | 21 | 1314 | 565 | 439 | 77.6991 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | * | 47.6068 | 33.6951 | 81.0840 | 49.2004 | 3043 | 5988 | 2962 | 691 | 439 | 63.5311 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1527 | 97.7494 | 98.5592 | 55.1204 | 31272 | 720 | 31194 | 456 | 439 | 96.2719 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.8457 | 34.5247 | 50.0000 | 39.0585 | 454 | 861 | 479 | 479 | 439 | 91.6493 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | het | 76.3438 | 87.3819 | 67.7816 | 62.0964 | 12389 | 1789 | 12564 | 5972 | 438 | 7.3342 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 63.6599 | 61.2245 | 66.2970 | 66.6238 | 1320 | 836 | 1375 | 699 | 438 | 62.6609 | |
| anovak-vg | INDEL | I1_5 | map_l100_m2_e1 | homalt | 67.1322 | 92.7778 | 52.5941 | 79.0940 | 501 | 39 | 517 | 466 | 438 | 93.9914 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 80.3087 | 86.8666 | 74.6716 | 81.1723 | 2057 | 311 | 2444 | 829 | 438 | 52.8347 | |
| qzeng-custom | INDEL | I6_15 | HG002compoundhet | het | 84.7648 | 91.3462 | 79.0682 | 44.3175 | 190 | 18 | 2274 | 602 | 437 | 72.5914 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.1157 | 91.3786 | 83.2329 | 63.6787 | 2247 | 212 | 2209 | 445 | 437 | 98.2022 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1254 | 97.6900 | 98.5646 | 55.1368 | 31253 | 739 | 31175 | 454 | 437 | 96.2555 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.1158 | 94.4808 | 84.3273 | 67.4932 | 2020 | 118 | 2432 | 452 | 436 | 96.4602 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.4027 | 98.2214 | 98.5847 | 55.7301 | 31423 | 569 | 31346 | 450 | 436 | 96.8889 | |
| gduggal-snapplat | INDEL | I6_15 | * | homalt | 35.4854 | 25.0841 | 60.6230 | 61.9684 | 1565 | 4674 | 1518 | 986 | 436 | 44.2191 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 81.9557 | 95.2253 | 71.9321 | 77.0498 | 29656 | 1487 | 30041 | 11722 | 436 | 3.7195 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 81.9557 | 95.2253 | 71.9321 | 77.0498 | 29656 | 1487 | 30041 | 11722 | 436 | 3.7195 | |
| gduggal-snapfb | SNP | ti | map_l100_m1_e0 | het | 97.3515 | 98.0162 | 96.6958 | 65.8783 | 29348 | 594 | 29352 | 1003 | 436 | 43.4696 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e0 | het | 97.3939 | 98.0537 | 96.7430 | 68.0809 | 30026 | 596 | 30030 | 1011 | 436 | 43.1256 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e1 | het | 97.4111 | 98.0685 | 96.7625 | 68.1401 | 30362 | 598 | 30366 | 1016 | 436 | 42.9134 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 26.7554 | 24.6259 | 29.2880 | 56.6011 | 181 | 554 | 181 | 437 | 436 | 99.7712 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 71.6109 | 63.4771 | 82.1356 | 31.7350 | 471 | 271 | 2023 | 440 | 436 | 99.0909 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.3676 | 96.1079 | 96.6286 | 54.1432 | 24372 | 987 | 24047 | 839 | 436 | 51.9666 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.0066 | 99.5228 | 94.6144 | 77.5514 | 16894 | 81 | 16918 | 963 | 436 | 45.2752 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.0066 | 99.5228 | 94.6144 | 77.5514 | 16894 | 81 | 16918 | 963 | 436 | 45.2752 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 27.1461 | 25.0340 | 29.6474 | 55.0756 | 184 | 551 | 185 | 439 | 435 | 99.0888 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 37.1546 | 81.6568 | 24.0484 | 55.6068 | 138 | 31 | 139 | 439 | 435 | 99.0888 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.7223 | 87.9766 | 95.8011 | 68.6010 | 14144 | 1933 | 12617 | 553 | 435 | 78.6618 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.7223 | 87.9766 | 95.8011 | 68.6010 | 14144 | 1933 | 12617 | 553 | 435 | 78.6618 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.6374 | 95.8769 | 95.3990 | 63.4546 | 17417 | 749 | 17417 | 840 | 435 | 51.7857 | |