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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52351-52400 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.9190 | 99.2554 | 96.6182 | 68.9966 | 2666 | 20 | 2657 | 93 | 4 | 4.3011 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | het | 85.6436 | 76.9070 | 96.6195 | 86.8249 | 8116 | 2437 | 8117 | 284 | 231 | 81.3380 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.9360 | 95.2617 | 96.6200 | 68.1344 | 5569 | 277 | 5517 | 193 | 187 | 96.8912 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.9360 | 95.2617 | 96.6200 | 68.1344 | 5569 | 277 | 5517 | 193 | 187 | 96.8912 | |
| cchapple-custom | INDEL | I6_15 | * | homalt | 98.0872 | 99.5993 | 96.6202 | 48.7819 | 6214 | 25 | 6175 | 216 | 214 | 99.0741 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 93.0516 | 89.7370 | 96.6205 | 87.5894 | 1740 | 199 | 1744 | 61 | 7 | 11.4754 | |
| jli-custom | INDEL | D1_5 | HG002complexvar | hetalt | 93.0817 | 89.7929 | 96.6206 | 73.4123 | 1214 | 138 | 1258 | 44 | 43 | 97.7273 | |
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 90.3792 | 84.8945 | 96.6216 | 83.4493 | 1287 | 229 | 1287 | 45 | 5 | 11.1111 | |
| ckim-gatk | SNP | ti | map_l250_m2_e0 | het | 74.5328 | 60.6638 | 96.6226 | 96.6749 | 1974 | 1280 | 1974 | 69 | 9 | 13.0435 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.7863 | 96.9500 | 96.6233 | 75.9515 | 2384 | 75 | 2375 | 83 | 74 | 89.1566 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | het | 84.3543 | 74.8499 | 96.6237 | 89.7210 | 14458 | 4858 | 14452 | 505 | 40 | 7.9208 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.1768 | 97.7361 | 96.6239 | 63.2047 | 6044 | 140 | 5953 | 208 | 24 | 11.5385 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | het | 96.8404 | 97.0560 | 96.6258 | 75.3280 | 3066 | 93 | 2835 | 99 | 55 | 55.5556 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.1122 | 95.6040 | 96.6259 | 60.2914 | 41430 | 1905 | 41238 | 1440 | 1303 | 90.4861 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | homalt | 96.9360 | 97.2477 | 96.6263 | 87.0809 | 742 | 21 | 1117 | 39 | 35 | 89.7436 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m2_e1 | het | 96.9546 | 97.2840 | 96.6275 | 81.2002 | 788 | 22 | 1232 | 43 | 28 | 65.1163 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.3676 | 96.1079 | 96.6286 | 54.1432 | 24372 | 987 | 24047 | 839 | 436 | 51.9666 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.8148 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9310 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9883 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | segdup | * | 97.4504 | 98.2857 | 96.6292 | 94.0168 | 172 | 3 | 172 | 6 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9883 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 14.8482 | 8.0420 | 96.6292 | 50.2793 | 23 | 263 | 86 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m1_e0 | het | 80.0000 | 68.2540 | 96.6292 | 95.5366 | 86 | 40 | 86 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.3185 | 92.1152 | 96.6299 | 62.4649 | 4895 | 419 | 4903 | 171 | 122 | 71.3450 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.2187 | 99.8597 | 96.6309 | 38.9931 | 2135 | 3 | 1979 | 69 | 6 | 8.6957 | |
| ckim-gatk | SNP | ti | map_l250_m2_e1 | het | 74.6885 | 60.8669 | 96.6314 | 96.6914 | 2008 | 1291 | 2008 | 70 | 9 | 12.8571 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7579 | 92.9553 | 96.6318 | 48.7341 | 3246 | 246 | 4246 | 148 | 137 | 92.5676 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 93.0444 | 89.7128 | 96.6330 | 87.5446 | 1718 | 197 | 1722 | 60 | 7 | 11.6667 | |
| ckim-gatk | SNP | * | map_l150_m2_e0 | het | 84.9182 | 75.7364 | 96.6335 | 90.2699 | 15248 | 4885 | 15242 | 531 | 41 | 7.7213 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | het | 97.0283 | 97.4260 | 96.6338 | 80.2465 | 757 | 20 | 1177 | 41 | 27 | 65.8537 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.1297 | 97.6301 | 96.6344 | 45.5436 | 2101 | 51 | 2096 | 73 | 71 | 97.2603 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8948 | 95.1662 | 96.6346 | 75.0898 | 630 | 32 | 603 | 21 | 15 | 71.4286 | |
| jmaeng-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 92.2064 | 88.1657 | 96.6354 | 72.5869 | 1192 | 160 | 1235 | 43 | 43 | 100.0000 | |
| eyeh-varpipe | SNP | * | map_l100_m0_e0 | * | 98.1181 | 99.6468 | 96.6356 | 72.2026 | 32725 | 116 | 31854 | 1109 | 29 | 2.6150 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | homalt | 96.6684 | 96.6984 | 96.6384 | 45.8931 | 13004 | 444 | 12649 | 440 | 434 | 98.6364 | |
| gduggal-bwafb | INDEL | * | map_l250_m2_e1 | homalt | 97.8723 | 99.1379 | 96.6387 | 95.8709 | 115 | 1 | 115 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.8723 | 99.1379 | 96.6387 | 95.1744 | 115 | 1 | 115 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l250_m2_e0 | het | 95.8333 | 95.0413 | 96.6387 | 95.1009 | 115 | 6 | 115 | 4 | 2 | 50.0000 | |
| qzeng-custom | INDEL | * | map_l150_m2_e1 | homalt | 81.5445 | 70.5285 | 96.6387 | 89.8225 | 347 | 145 | 460 | 16 | 9 | 56.2500 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.0642 | 87.9032 | 96.6387 | 87.3539 | 109 | 15 | 115 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | * | HG002compoundhet | het | 94.4520 | 92.3614 | 96.6395 | 53.1760 | 13095 | 1083 | 13286 | 462 | 40 | 8.6580 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.9960 | 99.3902 | 96.6403 | 62.2670 | 489 | 3 | 489 | 17 | 16 | 94.1176 | |
| eyeh-varpipe | SNP | * | segdup | * | 98.2314 | 99.8753 | 96.6407 | 90.4939 | 28032 | 35 | 27387 | 952 | 22 | 2.3109 | |
| qzeng-custom | SNP | * | map_l125_m2_e0 | het | 84.0186 | 74.3127 | 96.6407 | 86.6277 | 21787 | 7531 | 21605 | 751 | 614 | 81.7577 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | * | 97.0145 | 97.3908 | 96.6411 | 87.1665 | 3658 | 98 | 3654 | 127 | 20 | 15.7480 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e1 | het | 96.2825 | 95.9259 | 96.6418 | 87.1729 | 777 | 33 | 777 | 27 | 3 | 11.1111 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | homalt | 98.0751 | 99.5516 | 96.6418 | 69.9214 | 1554 | 7 | 1554 | 54 | 51 | 94.4444 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 80.2269 | 68.5786 | 96.6418 | 53.7532 | 275 | 126 | 518 | 18 | 17 | 94.4444 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1914 | 99.7899 | 96.6433 | 56.0900 | 9501 | 20 | 9501 | 330 | 327 | 99.0909 | |