PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
82601-82650 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | ti | map_l250_m1_e0 | het | 63.3134 | 59.0633 | 68.2225 | 93.3005 | 1753 | 1215 | 1754 | 817 | 20 | 2.4480 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | het | 88.4835 | 81.5574 | 96.6953 | 87.4762 | 23911 | 5407 | 23905 | 817 | 51 | 6.2424 | |
| mlin-fermikit | SNP | ti | map_l125_m0_e0 | homalt | 56.8886 | 46.9829 | 72.0875 | 54.0574 | 2110 | 2381 | 2110 | 817 | 761 | 93.1457 | |
| raldana-dualsentieon | SNP | tv | * | het | 99.8532 | 99.8447 | 99.8617 | 22.1748 | 590777 | 919 | 590703 | 818 | 22 | 2.6895 | |
| jpowers-varprowl | SNP | * | segdup | * | 98.1671 | 99.2090 | 97.1467 | 91.9113 | 27845 | 222 | 27851 | 818 | 71 | 8.6797 | |
| mlin-fermikit | INDEL | I1_5 | HG002complexvar | * | 96.3771 | 95.3032 | 97.4754 | 51.5661 | 31796 | 1567 | 31622 | 819 | 800 | 97.6801 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.2644 | 90.8623 | 95.7970 | 33.1527 | 18714 | 1882 | 18667 | 819 | 734 | 89.6215 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | * | 84.6294 | 74.6420 | 97.7024 | 85.2765 | 34875 | 11848 | 34869 | 820 | 54 | 6.5854 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e0 | het | 94.7121 | 94.6314 | 94.7930 | 82.9183 | 14930 | 847 | 14928 | 820 | 395 | 48.1707 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 90.3235 | 94.7999 | 86.2508 | 84.2900 | 5141 | 282 | 5144 | 820 | 83 | 10.1220 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 90.3235 | 94.7999 | 86.2508 | 84.2900 | 5141 | 282 | 5144 | 820 | 83 | 10.1220 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 94.8642 | 95.2989 | 94.4335 | 80.6105 | 13886 | 685 | 13911 | 820 | 85 | 10.3659 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 94.8642 | 95.2989 | 94.4335 | 80.6105 | 13886 | 685 | 13911 | 820 | 85 | 10.3659 | |
| eyeh-varpipe | INDEL | D16_PLUS | * | het | 74.8225 | 76.6382 | 73.0908 | 51.0116 | 2421 | 738 | 2230 | 821 | 811 | 98.7820 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 74.9889 | 82.2562 | 68.9015 | 82.7699 | 1451 | 313 | 1819 | 821 | 334 | 40.6821 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 91.6770 | 95.2628 | 88.3513 | 55.6869 | 1468 | 73 | 6227 | 821 | 401 | 48.8429 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002compoundhet | homalt | 0.4762 | 12.5000 | 0.2427 | 19.8444 | 1 | 7 | 2 | 822 | 821 | 99.8783 | |
| gduggal-snapplat | SNP | ti | map_l150_m2_e0 | het | 93.1053 | 92.6481 | 93.5671 | 87.2010 | 11934 | 947 | 11956 | 822 | 460 | 55.9611 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4986 | 91.8437 | 95.2143 | 47.2808 | 10202 | 906 | 16374 | 823 | 701 | 85.1762 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 40.1642 | 32.5939 | 52.3148 | 73.3785 | 720 | 1489 | 904 | 824 | 648 | 78.6408 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 66.0268 | 75.3467 | 58.7588 | 41.5789 | 489 | 160 | 1174 | 824 | 725 | 87.9854 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | het | 88.5956 | 81.7375 | 96.7099 | 87.4772 | 24227 | 5413 | 24221 | 824 | 52 | 6.3107 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0261 | 98.9285 | 99.1239 | 73.3821 | 93437 | 1012 | 93346 | 825 | 733 | 88.8485 | |
| gduggal-snapplat | SNP | ti | map_l150_m2_e1 | het | 93.1452 | 92.6854 | 93.6096 | 87.2522 | 12063 | 952 | 12085 | 825 | 463 | 56.1212 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | het | 94.7477 | 94.6794 | 94.8162 | 82.9388 | 15090 | 848 | 15090 | 825 | 397 | 48.1212 | |
| gduggal-snapvard | SNP | tv | map_l250_m1_e0 | het | 79.6442 | 96.8663 | 67.6217 | 91.5354 | 1731 | 56 | 1723 | 825 | 28 | 3.3939 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 75.9768 | 87.8450 | 66.9339 | 67.8314 | 1496 | 207 | 1670 | 825 | 122 | 14.7879 | |
| ghariani-varprowl | SNP | ti | map_l100_m1_e0 | het | 98.1681 | 99.0582 | 97.2939 | 72.4309 | 29660 | 282 | 29662 | 825 | 157 | 19.0303 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | homalt | 61.2199 | 97.0845 | 44.7051 | 74.4521 | 666 | 20 | 667 | 825 | 708 | 85.8182 | |
| ciseli-custom | SNP | ti | map_l150_m1_e0 | homalt | 86.8060 | 85.3282 | 88.3359 | 70.2453 | 6252 | 1075 | 6248 | 825 | 675 | 81.8182 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 78.0779 | 88.6152 | 69.7802 | 44.4557 | 1907 | 245 | 1905 | 825 | 723 | 87.6364 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.6332 | 88.2406 | 95.2970 | 51.5896 | 15593 | 2078 | 16717 | 825 | 785 | 95.1515 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.6332 | 88.2406 | 95.2970 | 51.5896 | 15593 | 2078 | 16717 | 825 | 785 | 95.1515 | |
| qzeng-custom | SNP | * | map_l125_m1_e0 | * | 83.4865 | 72.9742 | 97.5374 | 82.2302 | 33077 | 12250 | 32716 | 826 | 701 | 84.8668 | |
| gduggal-snapplat | SNP | ti | map_l100_m0_e0 | het | 93.3645 | 92.7197 | 94.0184 | 82.6234 | 12965 | 1018 | 12983 | 826 | 467 | 56.5375 | |
| gduggal-snapplat | SNP | tv | map_l100_m1_e0 | * | 94.8170 | 93.1840 | 96.5083 | 77.9815 | 22831 | 1670 | 22830 | 826 | 404 | 48.9104 | |
| gduggal-snapplat | SNP | ti | map_l150_m1_e0 | * | 92.9132 | 90.4018 | 95.5681 | 83.3799 | 17820 | 1892 | 17833 | 827 | 469 | 56.7110 | |
| anovak-vg | INDEL | D16_PLUS | * | het | 72.6101 | 70.2754 | 75.1054 | 49.0881 | 2220 | 939 | 2495 | 827 | 601 | 72.6723 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1590 | 96.0055 | 98.3406 | 45.9292 | 36388 | 1514 | 49009 | 827 | 740 | 89.4800 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | * | 84.7588 | 74.8379 | 97.7121 | 85.2730 | 35325 | 11877 | 35319 | 827 | 55 | 6.6505 | |
| ciseli-custom | SNP | tv | map_l100_m1_e0 | homalt | 89.0533 | 87.6147 | 90.5399 | 62.3935 | 7923 | 1120 | 7915 | 827 | 623 | 75.3325 | |
| gduggal-snapvard | SNP | tv | map_l250_m1_e0 | * | 84.2656 | 95.6932 | 75.2762 | 90.8080 | 2533 | 114 | 2521 | 828 | 30 | 3.6232 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9092 | 98.7644 | 97.0687 | 69.5742 | 27336 | 342 | 27419 | 828 | 294 | 35.5072 | |
| 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 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.4080 | 98.2055 | 80.3880 | 75.9570 | 3393 | 62 | 3398 | 829 | 114 | 13.7515 | |
| gduggal-snapfb | SNP | ti | map_l125_m1_e0 | het | 96.3921 | 97.2572 | 95.5423 | 70.8639 | 17765 | 501 | 17768 | 829 | 394 | 47.5271 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.1813 | 97.7317 | 92.7606 | 85.9802 | 10556 | 245 | 10635 | 830 | 248 | 29.8795 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |