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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27001-27050 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | I6_15 | map_siren | * | 95.2066 | 94.4262 | 96.0000 | 86.3014 | 288 | 17 | 288 | 12 | 5 | 41.6667 | |
| ghariani-varprowl | INDEL | D1_5 | map_l100_m2_e1 | homalt | 95.2066 | 92.9032 | 97.6271 | 78.5766 | 576 | 44 | 576 | 14 | 2 | 14.2857 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.2063 | 96.6159 | 93.8373 | 59.1611 | 1142 | 40 | 1142 | 75 | 73 | 97.3333 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2061 | 98.4144 | 92.2003 | 46.1270 | 3600 | 58 | 3700 | 313 | 294 | 93.9297 | |
| cchapple-custom | SNP | * | map_l250_m2_e0 | het | 95.2059 | 95.7451 | 94.6728 | 91.6166 | 4973 | 221 | 4976 | 280 | 64 | 22.8571 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2056 | 96.5856 | 93.8645 | 49.5961 | 2065 | 73 | 2050 | 134 | 7 | 5.2239 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.2032 | 91.8723 | 98.7848 | 43.0326 | 2532 | 224 | 2520 | 31 | 30 | 96.7742 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.2014 | 93.3840 | 97.0909 | 41.7126 | 1228 | 87 | 1335 | 40 | 33 | 82.5000 | |
| gduggal-snapplat | SNP | tv | map_l100_m1_e0 | homalt | 95.2001 | 90.9101 | 99.9149 | 63.7649 | 8221 | 822 | 8222 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.1996 | 94.1441 | 96.2791 | 59.2803 | 209 | 13 | 207 | 8 | 6 | 75.0000 | |
| cchapple-custom | SNP | tv | map_l150_m2_e0 | het | 95.1992 | 97.1870 | 93.2911 | 82.3459 | 7048 | 204 | 7064 | 508 | 83 | 16.3386 | |
| cchapple-custom | SNP | ti | map_l150_m0_e0 | het | 95.1985 | 95.5072 | 94.8918 | 84.4938 | 4868 | 229 | 4867 | 262 | 76 | 29.0076 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m2_e0 | het | 95.1985 | 95.9647 | 94.4444 | 84.6066 | 761 | 32 | 765 | 45 | 6 | 13.3333 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | het | 95.1984 | 96.6443 | 93.7950 | 84.7357 | 2160 | 75 | 2343 | 155 | 39 | 25.1613 | |
| ckim-dragen | SNP | ti | map_l250_m0_e0 | het | 95.1974 | 95.5032 | 94.8936 | 94.2165 | 892 | 42 | 892 | 48 | 1 | 2.0833 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 95.1973 | 91.2471 | 99.5050 | 29.3294 | 1178 | 113 | 1206 | 6 | 5 | 83.3333 | |
| gduggal-snapvard | SNP | * | map_siren | het | 95.1967 | 96.5469 | 93.8838 | 69.6200 | 87849 | 3142 | 86743 | 5651 | 524 | 9.2727 | |
| egarrison-hhga | INDEL | I1_5 | map_l250_m2_e1 | * | 95.1965 | 95.6140 | 94.7826 | 96.4691 | 109 | 5 | 109 | 6 | 1 | 16.6667 | |
| gduggal-snapfb | INDEL | * | map_l250_m2_e1 | homalt | 95.1965 | 93.9655 | 96.4602 | 96.9891 | 109 | 7 | 109 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m1_e0 | het | 95.1960 | 92.6421 | 97.8947 | 88.6091 | 277 | 22 | 279 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 95.1951 | 98.8312 | 91.8171 | 91.9100 | 761 | 9 | 763 | 68 | 4 | 5.8824 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.1948 | 95.7925 | 94.6045 | 46.7027 | 8014 | 352 | 8013 | 457 | 181 | 39.6061 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | het | 95.1944 | 96.5756 | 93.8521 | 85.6721 | 2228 | 79 | 2412 | 158 | 40 | 25.3165 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.1935 | 94.2916 | 96.1127 | 68.3224 | 16006 | 969 | 16096 | 651 | 464 | 71.2750 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.1935 | 94.2916 | 96.1127 | 68.3224 | 16006 | 969 | 16096 | 651 | 464 | 71.2750 | |
| gduggal-snapfb | INDEL | * | map_l125_m0_e0 | homalt | 95.1935 | 94.0141 | 96.4029 | 91.9583 | 267 | 17 | 268 | 10 | 6 | 60.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.1927 | 91.2096 | 99.5395 | 87.2592 | 1297 | 125 | 1297 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.1923 | 94.7368 | 95.6522 | 72.2892 | 18 | 1 | 22 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.1923 | 92.5234 | 98.0198 | 73.2238 | 495 | 40 | 495 | 10 | 10 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l250_m2_e1 | het | 95.1923 | 93.8389 | 96.5854 | 95.3641 | 198 | 13 | 198 | 7 | 1 | 14.2857 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.1908 | 91.4842 | 99.2105 | 70.2428 | 376 | 35 | 377 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l250_m2_e1 | het | 95.1903 | 97.7872 | 92.7278 | 92.3245 | 3226 | 73 | 3226 | 253 | 51 | 20.1581 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.1902 | 91.5599 | 99.1202 | 67.5348 | 10577 | 975 | 10478 | 93 | 44 | 47.3118 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.1902 | 91.5599 | 99.1202 | 67.5348 | 10577 | 975 | 10478 | 93 | 44 | 47.3118 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.1899 | 100.0000 | 90.8213 | 67.6056 | 188 | 0 | 188 | 19 | 18 | 94.7368 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.1899 | 100.0000 | 90.8213 | 67.7067 | 188 | 0 | 188 | 19 | 18 | 94.7368 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | * | 95.1894 | 92.4704 | 98.0731 | 32.6928 | 8351 | 680 | 8347 | 164 | 158 | 96.3415 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1890 | 91.6575 | 99.0035 | 38.6331 | 1670 | 152 | 1689 | 17 | 16 | 94.1176 | |
| jmaeng-gatk | INDEL | D6_15 | segdup | het | 95.1872 | 96.7391 | 93.6842 | 96.4932 | 89 | 3 | 89 | 6 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l250_m2_e0 | * | 95.1872 | 96.7391 | 93.6842 | 95.1568 | 178 | 6 | 178 | 12 | 1 | 8.3333 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 95.1872 | 94.4745 | 95.9108 | 49.8134 | 872 | 51 | 258 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | * | hetalt | 95.1862 | 91.1955 | 99.5422 | 68.0582 | 23015 | 2222 | 23702 | 109 | 107 | 98.1651 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m0_e0 | * | 95.1860 | 95.5645 | 94.8104 | 87.9856 | 474 | 22 | 475 | 26 | 7 | 26.9231 | |
| ghariani-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.1859 | 99.0236 | 91.6345 | 64.6332 | 27686 | 273 | 27790 | 2537 | 281 | 11.0761 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | * | 95.1831 | 98.8894 | 91.7447 | 81.3088 | 16472 | 185 | 16470 | 1482 | 91 | 6.1404 | |
| astatham-gatk | INDEL | * | map_l150_m2_e1 | het | 95.1831 | 93.9394 | 96.4602 | 91.7945 | 868 | 56 | 872 | 32 | 4 | 12.5000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m2_e0 | het | 95.1813 | 92.5566 | 97.9592 | 89.7023 | 286 | 23 | 288 | 6 | 1 | 16.6667 | |
| 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 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 95.1807 | 91.8605 | 98.7500 | 85.1943 | 237 | 21 | 237 | 3 | 1 | 33.3333 | |
| mlin-fermikit | SNP | * | tech_badpromoters | homalt | 95.1807 | 98.7500 | 91.8605 | 44.8718 | 79 | 1 | 79 | 7 | 6 | 85.7143 | |