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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83801-83850 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 86.7930 | 84.0381 | 89.7346 | 47.2948 | 2027 | 385 | 6626 | 758 | 648 | 85.4881 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 40.1642 | 32.5939 | 52.3148 | 73.3785 | 720 | 1489 | 904 | 824 | 648 | 78.6408 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 52.1726 | 37.5740 | 85.3233 | 64.3826 | 4315 | 7169 | 4302 | 740 | 648 | 87.5676 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 67.8919 | 98.5775 | 51.7751 | 39.8577 | 693 | 10 | 700 | 652 | 649 | 99.5399 | |
| gduggal-snapplat | INDEL | I6_15 | * | * | 41.4207 | 29.2310 | 71.0492 | 57.1777 | 7256 | 17567 | 7117 | 2900 | 649 | 22.3793 | |
| gduggal-bwafb | INDEL | I1_5 | * | het | 98.0966 | 97.2622 | 98.9454 | 56.5385 | 76877 | 2164 | 82849 | 883 | 649 | 73.4994 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 42.7693 | 45.3355 | 40.4781 | 43.2897 | 277 | 334 | 508 | 747 | 649 | 86.8809 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 56.9297 | 50.5845 | 65.0951 | 55.0427 | 1601 | 1564 | 1712 | 918 | 650 | 70.8061 | |
| anovak-vg | SNP | * | map_l250_m2_e0 | * | 75.1311 | 81.7121 | 69.5312 | 91.5463 | 6443 | 1442 | 6392 | 2801 | 650 | 23.2060 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 63.8782 | 90.0427 | 49.4957 | 35.6465 | 633 | 70 | 638 | 651 | 650 | 99.8464 | |
| ciseli-custom | INDEL | D1_5 | HG002complexvar | het | 87.0231 | 88.2917 | 85.7906 | 58.0288 | 18332 | 2431 | 18318 | 3034 | 650 | 21.4239 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 84.3152 | 93.7856 | 76.5821 | 40.7415 | 2143 | 142 | 2142 | 655 | 651 | 99.3893 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 88.4778 | 97.5667 | 80.9379 | 76.0931 | 2927 | 73 | 2934 | 691 | 651 | 94.2113 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.3814 | 98.9059 | 76.6723 | 45.1991 | 2260 | 25 | 2258 | 687 | 651 | 94.7598 | |
| gduggal-snapfb | INDEL | I6_15 | HG002compoundhet | het | 56.6000 | 41.8269 | 87.5070 | 19.0965 | 87 | 121 | 4686 | 669 | 652 | 97.4589 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 86.2358 | 92.6000 | 80.6901 | 73.5018 | 2778 | 222 | 2783 | 666 | 652 | 97.8979 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 29.7781 | 20.5030 | 54.3776 | 66.9455 | 799 | 3098 | 795 | 667 | 654 | 98.0510 | |
| anovak-vg | SNP | * | map_l250_m2_e1 | * | 75.2143 | 81.7954 | 69.6133 | 91.5868 | 6533 | 1454 | 6481 | 2829 | 654 | 23.1177 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.8832 | 99.4000 | 96.4120 | 64.9755 | 18057 | 109 | 18057 | 672 | 654 | 97.3214 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.8832 | 99.4000 | 96.4120 | 64.9755 | 18057 | 109 | 18057 | 672 | 654 | 97.3214 | |
| anovak-vg | INDEL | * | map_l100_m2_e1 | * | 72.2208 | 72.4441 | 71.9990 | 84.9008 | 2721 | 1035 | 2795 | 1087 | 655 | 60.2576 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | het | 87.7038 | 79.5123 | 97.7769 | 80.6669 | 36066 | 9293 | 35714 | 812 | 655 | 80.6650 | |
| qzeng-custom | SNP | * | map_l100_m2_e0 | het | 87.9050 | 79.8638 | 97.7467 | 81.4691 | 37056 | 9343 | 36699 | 846 | 656 | 77.5414 | |
| qzeng-custom | SNP | * | map_l100_m2_e1 | het | 87.9932 | 79.9949 | 97.7685 | 81.4422 | 37516 | 9382 | 37154 | 848 | 656 | 77.3585 | |
| ckim-isaac | INDEL | D6_15 | * | het | 91.7291 | 91.4941 | 91.9653 | 44.9050 | 10606 | 986 | 10084 | 881 | 656 | 74.4608 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.1821 | 88.1350 | 82.4206 | 72.9298 | 5378 | 724 | 5448 | 1162 | 656 | 56.4544 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.2809 | 95.5574 | 91.1103 | 49.1422 | 8023 | 373 | 7779 | 759 | 657 | 86.5613 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.7819 | 78.2631 | 81.3608 | 56.9182 | 3118 | 866 | 3121 | 715 | 658 | 92.0280 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 64.6970 | 88.5882 | 50.9550 | 49.1325 | 753 | 97 | 747 | 719 | 658 | 91.5160 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.1226 | 86.4620 | 96.3144 | 38.7578 | 4956 | 776 | 18319 | 701 | 658 | 93.8659 | |
| gduggal-snapfb | SNP | * | map_l100_m1_e0 | het | 97.2532 | 98.1503 | 96.3723 | 66.8525 | 44520 | 839 | 44524 | 1676 | 659 | 39.3198 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e0 | het | 97.2954 | 98.1875 | 96.4194 | 69.0247 | 45558 | 841 | 45562 | 1692 | 659 | 38.9480 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e1 | het | 97.3145 | 98.2025 | 96.4425 | 69.0883 | 46055 | 843 | 46059 | 1699 | 659 | 38.7875 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 63.9710 | 53.3687 | 79.8301 | 38.1774 | 705 | 616 | 2632 | 665 | 660 | 99.2481 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7218 | 88.4618 | 97.4128 | 51.1450 | 15763 | 2056 | 30197 | 802 | 660 | 82.2943 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 33.1178 | 59.0909 | 23.0058 | 50.3159 | 195 | 135 | 199 | 666 | 661 | 99.2492 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 53.0600 | 50.0000 | 56.5189 | 40.9091 | 865 | 865 | 867 | 667 | 662 | 99.2504 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.1962 | 96.6768 | 88.1125 | 56.1680 | 5411 | 186 | 12282 | 1657 | 662 | 39.9517 | |
| gduggal-bwafb | INDEL | D6_15 | HG002compoundhet | * | 88.7012 | 84.9518 | 92.7969 | 32.0774 | 7672 | 1359 | 8799 | 683 | 663 | 97.0717 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 36.4192 | 29.7932 | 46.8354 | 63.9946 | 634 | 1494 | 629 | 714 | 663 | 92.8571 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 19.1784 | 16.0456 | 23.8312 | 52.5433 | 211 | 1104 | 209 | 668 | 663 | 99.2515 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 50.2630 | 46.4740 | 54.7247 | 37.4043 | 804 | 926 | 805 | 666 | 663 | 99.5495 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 85.8273 | 81.4433 | 90.7101 | 41.4412 | 2844 | 648 | 7128 | 730 | 664 | 90.9589 | |
| gduggal-snapplat | SNP | ti | map_l100_m1_e0 | het | 95.4495 | 95.2475 | 95.6523 | 78.8806 | 28519 | 1423 | 28557 | 1298 | 664 | 51.1556 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 79.6213 | 77.5816 | 81.7711 | 43.7436 | 3163 | 914 | 3158 | 704 | 666 | 94.6023 | |
| gduggal-snapplat | SNP | ti | map_l100_m2_e0 | het | 95.5194 | 95.3171 | 95.7225 | 80.1164 | 29188 | 1434 | 29226 | 1306 | 667 | 51.0720 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 78.1416 | 74.7118 | 81.9014 | 40.1032 | 3046 | 1031 | 3041 | 672 | 667 | 99.2560 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 52.1457 | 98.9446 | 35.4015 | 37.2279 | 375 | 4 | 388 | 708 | 669 | 94.4915 | |
| anovak-vg | INDEL | D6_15 | HG002compoundhet | homalt | 20.9157 | 83.3333 | 11.9586 | 45.5385 | 20 | 4 | 127 | 935 | 669 | 71.5508 | |
| gduggal-snapvard | INDEL | * | map_siren | * | 85.9947 | 88.0027 | 84.0764 | 84.1625 | 6521 | 889 | 7355 | 1393 | 670 | 48.0976 | |