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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37901-37950 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | map_l125_m0_e0 | hetalt | 84.2105 | 88.8889 | 80.0000 | 90.9910 | 8 | 1 | 8 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002compoundhet | homalt | 84.2105 | 100.0000 | 72.7273 | 76.0870 | 8 | 0 | 8 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l150_m2_e1 | * | 84.2105 | 88.8889 | 80.0000 | 97.5124 | 16 | 2 | 16 | 4 | 1 | 25.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 84.2105 | 72.7273 | 100.0000 | 96.1585 | 32 | 12 | 32 | 0 | 0 | ||
| qzeng-custom | INDEL | * | map_l125_m0_e0 | hetalt | 84.2105 | 72.7273 | 100.0000 | 97.6190 | 8 | 3 | 3 | 0 | 0 | ||
| qzeng-custom | INDEL | I16_PLUS | map_l125_m1_e0 | het | 84.2105 | 88.8889 | 80.0000 | 89.9497 | 8 | 1 | 16 | 4 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 84.2105 | 72.7273 | 100.0000 | 61.9048 | 40 | 15 | 40 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 84.2105 | 72.7273 | 100.0000 | 78.5714 | 8 | 3 | 9 | 0 | 0 | ||
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | * | 84.2085 | 74.0000 | 97.6843 | 84.3364 | 33542 | 11785 | 33536 | 795 | 54 | 6.7925 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | homalt | 84.2063 | 73.2631 | 98.9926 | 69.1889 | 4450 | 1624 | 4422 | 45 | 45 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 84.2056 | 79.3893 | 89.6441 | 65.5967 | 2808 | 729 | 2796 | 323 | 253 | 78.3282 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | homalt | 84.2050 | 94.4637 | 75.9563 | 78.1493 | 273 | 16 | 278 | 88 | 85 | 96.5909 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m1_e0 | het | 84.2017 | 98.4375 | 73.5632 | 93.0732 | 63 | 1 | 64 | 23 | 16 | 69.5652 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 84.1998 | 75.5674 | 95.0586 | 89.6740 | 1132 | 366 | 1135 | 59 | 25 | 42.3729 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 84.1988 | 94.4771 | 75.9374 | 66.3688 | 2087 | 122 | 2086 | 661 | 626 | 94.7050 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 84.1984 | 77.2530 | 92.5161 | 66.6953 | 1423 | 419 | 1434 | 116 | 91 | 78.4483 | |
| gduggal-snapfb | INDEL | D1_5 | * | hetalt | 84.1984 | 78.0771 | 91.3611 | 79.2100 | 7999 | 2246 | 3289 | 311 | 140 | 45.0161 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | * | 84.1952 | 73.5770 | 98.3950 | 83.2672 | 1409 | 506 | 1410 | 23 | 11 | 47.8261 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 84.1931 | 94.0741 | 76.1905 | 60.9756 | 254 | 16 | 256 | 80 | 78 | 97.5000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 84.1893 | 75.7282 | 94.7791 | 94.2798 | 234 | 75 | 236 | 13 | 1 | 7.6923 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.1837 | 80.4878 | 88.2353 | 95.6907 | 33 | 8 | 30 | 4 | 3 | 75.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 84.1772 | 73.3974 | 98.6684 | 34.6801 | 2290 | 830 | 2297 | 31 | 21 | 67.7419 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 84.1727 | 99.6274 | 72.8688 | 27.5370 | 7220 | 27 | 7394 | 2753 | 2746 | 99.7457 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 84.1712 | 93.6594 | 76.4286 | 83.9334 | 1034 | 70 | 856 | 264 | 45 | 17.0455 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | homalt | 84.1702 | 73.1719 | 99.0595 | 77.5693 | 2992 | 1097 | 2949 | 28 | 25 | 89.2857 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m2_e0 | * | 84.1683 | 92.9204 | 76.9231 | 95.9931 | 105 | 8 | 160 | 48 | 13 | 27.0833 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e1 | het | 84.1666 | 98.0843 | 73.7079 | 91.1768 | 512 | 10 | 656 | 234 | 53 | 22.6496 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 84.1642 | 83.2621 | 85.0860 | 71.1301 | 31558 | 6344 | 32017 | 5612 | 5145 | 91.6785 | |
| gduggal-bwaplat | INDEL | I6_15 | * | het | 84.1633 | 73.9659 | 97.6222 | 67.9845 | 7421 | 2612 | 7431 | 181 | 55 | 30.3867 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 84.1619 | 82.2267 | 86.1905 | 45.3886 | 7777 | 1681 | 7783 | 1247 | 1228 | 98.4763 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 84.1610 | 92.6630 | 77.0880 | 87.8937 | 1023 | 81 | 1043 | 310 | 101 | 32.5806 | |
| ciseli-custom | SNP | tv | tech_badpromoters | * | 84.1610 | 97.2222 | 74.1935 | 52.7919 | 70 | 2 | 69 | 24 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m1_e0 | * | 84.1534 | 79.1566 | 89.8236 | 93.4173 | 657 | 173 | 662 | 75 | 4 | 5.3333 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | homalt | 84.1423 | 73.1594 | 99.0054 | 69.1320 | 4402 | 1615 | 4380 | 44 | 44 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.1376 | 76.8293 | 92.9825 | 64.4860 | 63 | 19 | 106 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 84.1376 | 72.6976 | 99.8506 | 49.3441 | 2005 | 753 | 2005 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | * | map_l125_m0_e0 | * | 84.1360 | 92.1769 | 77.3854 | 90.1890 | 813 | 69 | 1249 | 365 | 97 | 26.5753 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 84.1308 | 76.7376 | 93.1005 | 65.8125 | 1082 | 328 | 1093 | 81 | 21 | 25.9259 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | hetalt | 84.1295 | 75.8065 | 94.5055 | 88.4664 | 94 | 30 | 86 | 5 | 2 | 40.0000 | |
| qzeng-custom | SNP | * | map_l125_m2_e1 | het | 84.1292 | 74.4636 | 96.6784 | 86.6172 | 22071 | 7569 | 21888 | 752 | 615 | 81.7819 | |
| gduggal-snapplat | INDEL | I1_5 | map_l125_m2_e0 | * | 84.1285 | 78.9965 | 89.9736 | 93.9438 | 677 | 180 | 682 | 76 | 4 | 5.2632 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.1283 | 97.5299 | 73.9648 | 66.0177 | 1303 | 33 | 1304 | 459 | 12 | 2.6144 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002complexvar | hetalt | 84.1254 | 73.6713 | 98.0371 | 62.0604 | 901 | 322 | 899 | 18 | 17 | 94.4444 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.1219 | 73.6301 | 98.1006 | 47.7187 | 645 | 231 | 1911 | 37 | 37 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.1187 | 95.1327 | 75.3903 | 72.1991 | 5805 | 297 | 5747 | 1876 | 1702 | 90.7249 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 84.1131 | 77.3148 | 92.2222 | 50.6849 | 167 | 49 | 166 | 14 | 14 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 84.1121 | 72.5806 | 100.0000 | 90.6832 | 45 | 17 | 45 | 0 | 0 | ||
| ckim-isaac | INDEL | I1_5 | map_siren | homalt | 84.1104 | 72.9373 | 99.3258 | 73.3293 | 884 | 328 | 884 | 6 | 3 | 50.0000 | |
| ciseli-custom | INDEL | * | func_cds | * | 84.1100 | 83.3708 | 84.8624 | 37.1758 | 371 | 74 | 370 | 66 | 30 | 45.4545 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.1057 | 79.3599 | 89.4551 | 69.7220 | 1711 | 445 | 1773 | 209 | 166 | 79.4258 | |