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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58701-58750 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e0 | * | 99.1183 | 98.4500 | 99.7957 | 64.8854 | 29789 | 469 | 29791 | 61 | 19 | 31.1475 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m2_e1 | * | 99.1256 | 98.4625 | 99.7978 | 64.9540 | 30099 | 470 | 30102 | 61 | 19 | 31.1475 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e1 | * | 97.1814 | 96.7122 | 97.6551 | 80.7455 | 31151 | 1059 | 31151 | 748 | 233 | 31.1497 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e1 | * | 83.7577 | 72.3674 | 99.4034 | 80.9971 | 35811 | 13674 | 35822 | 215 | 67 | 31.1628 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 77.5741 | 66.9623 | 92.1827 | 77.2517 | 906 | 447 | 908 | 77 | 24 | 31.1688 | |
| gduggal-bwaplat | SNP | * | map_l150_m1_e0 | * | 68.1780 | 51.8769 | 99.4179 | 90.5327 | 15879 | 14730 | 15883 | 93 | 29 | 31.1828 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e0 | het | 82.4377 | 96.1369 | 72.1557 | 91.9661 | 871 | 35 | 1205 | 465 | 145 | 31.1828 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.5877 | 98.1945 | 98.9841 | 59.2905 | 10714 | 197 | 10620 | 109 | 34 | 31.1927 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | * | 99.8888 | 99.9038 | 99.8738 | 17.3355 | 507948 | 489 | 484239 | 612 | 191 | 31.2092 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | homalt | 99.6542 | 99.7054 | 99.6030 | 19.3776 | 192894 | 570 | 192940 | 769 | 240 | 31.2094 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | het | 82.4518 | 96.1039 | 72.1960 | 92.0188 | 888 | 36 | 1223 | 471 | 147 | 31.2102 | |
| jpowers-varprowl | SNP | * | map_l150_m2_e0 | * | 97.1685 | 96.6972 | 97.6445 | 80.6949 | 30800 | 1052 | 30800 | 743 | 232 | 31.2248 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e1 | het | 85.7424 | 98.1818 | 76.1006 | 89.7593 | 756 | 14 | 968 | 304 | 95 | 31.2500 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 49.1660 | 39.1892 | 65.9574 | 92.3328 | 29 | 45 | 31 | 16 | 5 | 31.2500 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 69.8354 | 74.6667 | 65.5914 | 51.8135 | 56 | 19 | 61 | 32 | 10 | 31.2500 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 0.0000 | 0.0000 | 93.4156 | 0 | 1 | 0 | 16 | 5 | 31.2500 | ||
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9153 | 98.1365 | 99.7066 | 60.6969 | 10901 | 207 | 10875 | 32 | 10 | 31.2500 | |
| jli-custom | INDEL | D1_5 | map_l100_m0_e0 | * | 98.0870 | 98.0301 | 98.1439 | 83.8969 | 846 | 17 | 846 | 16 | 5 | 31.2500 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.9773 | 97.5806 | 98.3773 | 68.8271 | 968 | 24 | 970 | 16 | 5 | 31.2500 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 70.5404 | 70.1754 | 70.9091 | 97.0238 | 40 | 17 | 39 | 16 | 5 | 31.2500 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m1_e0 | * | 97.5776 | 96.4152 | 98.7683 | 82.4696 | 1291 | 48 | 1283 | 16 | 5 | 31.2500 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e0 | * | 97.5922 | 96.4181 | 98.7952 | 83.8737 | 1319 | 49 | 1312 | 16 | 5 | 31.2500 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e1 | * | 97.6023 | 96.4158 | 98.8183 | 83.9763 | 1345 | 50 | 1338 | 16 | 5 | 31.2500 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 13.0521 | 7.5688 | 47.3684 | 59.8945 | 33 | 403 | 72 | 80 | 25 | 31.2500 | |
| astatham-gatk | INDEL | I1_5 | map_siren | * | 97.3853 | 95.4077 | 99.4467 | 81.4805 | 2867 | 138 | 2876 | 16 | 5 | 31.2500 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 97.2897 | 97.0127 | 97.5684 | 82.3852 | 1299 | 40 | 1284 | 32 | 10 | 31.2500 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e0 | * | 97.3100 | 97.0029 | 97.6190 | 83.7387 | 1327 | 41 | 1312 | 32 | 10 | 31.2500 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e1 | * | 97.3625 | 97.0609 | 97.6659 | 83.8268 | 1354 | 41 | 1339 | 32 | 10 | 31.2500 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5998 | 97.4834 | 97.7164 | 62.9555 | 54231 | 1400 | 53617 | 1253 | 392 | 31.2849 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9876 | 99.1538 | 98.8219 | 62.9494 | 11014 | 94 | 10989 | 131 | 41 | 31.2977 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 28.0220 | 59.5556 | 0 | 388 | 51 | 131 | 41 | 31.2977 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.6938 | 96.4613 | 92.9899 | 50.7135 | 3053 | 112 | 3051 | 230 | 72 | 31.3043 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e0 | * | 83.6206 | 72.1656 | 99.3982 | 81.0322 | 35333 | 13628 | 35344 | 214 | 67 | 31.3084 | |
| egarrison-hhga | SNP | * | map_l100_m2_e1 | het | 99.3694 | 98.9552 | 99.7871 | 65.4429 | 46408 | 490 | 46409 | 99 | 31 | 31.3131 | |
| hfeng-pmm1 | SNP | ti | map_siren | * | 99.7016 | 99.5376 | 99.8660 | 52.2018 | 99891 | 464 | 99878 | 134 | 42 | 31.3433 | |
| jpowers-varprowl | SNP | * | map_l125_m0_e0 | * | 96.4836 | 95.9660 | 97.0068 | 80.1786 | 18603 | 782 | 18603 | 574 | 180 | 31.3589 | |
| hfeng-pmm1 | SNP | ti | map_l100_m1_e0 | * | 99.5693 | 99.3532 | 99.7862 | 62.2569 | 47621 | 310 | 47614 | 102 | 32 | 31.3725 | |
| jpowers-varprowl | SNP | * | map_l100_m0_e0 | * | 97.2063 | 96.7297 | 97.6876 | 74.3551 | 31767 | 1074 | 31768 | 752 | 236 | 31.3830 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 64.1521 | 78.2895 | 54.3396 | 87.4882 | 119 | 33 | 144 | 121 | 38 | 31.4050 | |
| qzeng-custom | INDEL | I6_15 | HG002complexvar | het | 94.4892 | 95.7962 | 93.2173 | 56.1507 | 2256 | 99 | 2625 | 191 | 60 | 31.4136 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.1982 | 95.0000 | 91.4634 | 89.5261 | 684 | 36 | 750 | 70 | 22 | 31.4286 | |
| gduggal-snapvard | SNP | tv | segdup | * | 97.9096 | 97.0933 | 98.7396 | 94.2289 | 8284 | 248 | 8226 | 105 | 33 | 31.4286 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | * | 97.5600 | 97.1209 | 98.0031 | 75.2469 | 44022 | 1305 | 44022 | 897 | 282 | 31.4381 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e0 | het | 85.7414 | 98.1675 | 76.1076 | 89.6257 | 750 | 14 | 962 | 302 | 95 | 31.4570 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | het | 94.6235 | 94.6474 | 94.5997 | 86.3683 | 7515 | 425 | 7515 | 429 | 135 | 31.4685 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5450 | 99.5769 | 99.5131 | 63.1488 | 11061 | 47 | 11036 | 54 | 17 | 31.4815 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4066 | 99.4274 | 99.3858 | 50.7439 | 11807 | 68 | 11812 | 73 | 23 | 31.5068 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | * | 98.2636 | 98.0635 | 98.4645 | 81.5621 | 11799 | 233 | 11799 | 184 | 58 | 31.5217 | |
| hfeng-pmm1 | SNP | * | map_siren | * | 99.7072 | 99.5541 | 99.8607 | 53.5315 | 145576 | 652 | 145556 | 203 | 64 | 31.5271 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.2502 | 89.3757 | 77.9104 | 89.9920 | 816 | 97 | 783 | 222 | 70 | 31.5315 | |