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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15151-15200 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D1_5 | map_l125_m1_e0 | het | 94.6866 | 95.7300 | 93.6658 | 88.0554 | 695 | 31 | 695 | 47 | 26 | 55.3191 | |
| ltrigg-rtg1 | SNP | * | map_l125_m0_e0 | * | 98.5751 | 97.4258 | 99.7517 | 64.2305 | 18886 | 499 | 18884 | 47 | 16 | 34.0426 | |
| ltrigg-rtg1 | SNP | tv | func_cds | * | 99.4080 | 99.8856 | 98.9350 | 27.2263 | 4366 | 5 | 4366 | 47 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | func_cds | het | 99.0291 | 99.8118 | 98.2586 | 27.7763 | 2652 | 5 | 2652 | 47 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.3578 | 97.1724 | 99.5724 | 43.1938 | 10791 | 314 | 10945 | 47 | 46 | 97.8723 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.6237 | 98.6866 | 98.5609 | 63.0877 | 3231 | 43 | 3219 | 47 | 44 | 93.6170 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | * | 95.4155 | 93.2338 | 97.7017 | 49.8529 | 1998 | 145 | 1998 | 47 | 42 | 89.3617 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.0932 | 95.6186 | 98.6140 | 50.2202 | 3339 | 153 | 3344 | 47 | 36 | 76.5957 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4322 | 97.6427 | 99.2345 | 66.5194 | 6089 | 147 | 6093 | 47 | 18 | 38.2979 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.0000 | 70.6250 | 95.1427 | 0 | 0 | 113 | 47 | 42 | 89.3617 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.0000 | 70.6250 | 95.1427 | 0 | 0 | 113 | 47 | 42 | 89.3617 | |
| dgrover-gatk | INDEL | * | map_l100_m1_e0 | het | 98.1505 | 98.3893 | 97.9130 | 86.6398 | 2199 | 36 | 2205 | 47 | 10 | 21.2766 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 68.1120 | 71.9512 | 64.6617 | 69.6347 | 118 | 46 | 86 | 47 | 43 | 91.4894 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 80.7760 | 79.8611 | 81.7121 | 72.0348 | 230 | 58 | 210 | 47 | 30 | 63.8298 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4797 | 95.7302 | 99.2944 | 52.9989 | 6614 | 295 | 6614 | 47 | 42 | 89.3617 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5323 | 99.5000 | 99.5646 | 79.8322 | 10747 | 54 | 10747 | 47 | 15 | 31.9149 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | homalt | 89.8612 | 94.8097 | 85.4037 | 66.1053 | 274 | 15 | 275 | 47 | 38 | 80.8511 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.2513 | 95.6140 | 94.8913 | 62.4643 | 872 | 40 | 873 | 47 | 32 | 68.0851 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 79.2028 | 81.7073 | 76.8473 | 78.8981 | 134 | 30 | 156 | 47 | 42 | 89.3617 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.9033 | 83.4146 | 78.5388 | 83.2569 | 171 | 34 | 172 | 47 | 28 | 59.5745 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.9033 | 83.4146 | 78.5388 | 83.2569 | 171 | 34 | 172 | 47 | 28 | 59.5745 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.4215 | 95.7225 | 99.1819 | 60.8518 | 5684 | 254 | 5698 | 47 | 44 | 93.6170 | |
| ckim-isaac | SNP | * | map_l150_m2_e0 | het | 74.2562 | 59.1914 | 99.6072 | 80.1907 | 11917 | 8216 | 11918 | 47 | 8 | 17.0213 | |
| ckim-isaac | SNP | tv | map_siren | het | 84.7375 | 73.6377 | 99.7775 | 56.9492 | 21067 | 7542 | 21072 | 47 | 12 | 25.5319 | |
| ckim-vqsr | INDEL | * | map_l100_m0_e0 | het | 95.8049 | 96.1802 | 95.4325 | 92.0387 | 982 | 39 | 982 | 47 | 3 | 6.3830 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7729 | 96.8794 | 96.6667 | 75.3175 | 1366 | 44 | 1334 | 46 | 39 | 84.7826 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8560 | 94.5289 | 99.3006 | 52.1150 | 6531 | 378 | 6531 | 46 | 41 | 89.1304 | |
| ckim-vqsr | INDEL | I6_15 | HG002compoundhet | het | 86.6987 | 97.5962 | 77.9904 | 84.7889 | 203 | 5 | 163 | 46 | 45 | 97.8261 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 80.4772 | 76.5586 | 84.8185 | 64.9306 | 307 | 94 | 257 | 46 | 29 | 63.0435 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.7961 | 88.8038 | 99.3832 | 46.4455 | 7424 | 936 | 7412 | 46 | 33 | 71.7391 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.7961 | 88.8038 | 99.3832 | 46.4455 | 7424 | 936 | 7412 | 46 | 33 | 71.7391 | |
| egarrison-hhga | SNP | tv | segdup | * | 99.5315 | 99.6015 | 99.4616 | 90.4428 | 8498 | 34 | 8498 | 46 | 15 | 32.6087 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 53.0612 | 96.7191 | 0 | 0 | 52 | 46 | 24 | 52.1739 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 0.0000 | 0.0000 | 53.0612 | 96.7191 | 0 | 0 | 52 | 46 | 24 | 52.1739 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.5627 | 95.6563 | 99.5467 | 33.3070 | 10020 | 455 | 10102 | 46 | 45 | 97.8261 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | het | 82.8228 | 70.7902 | 99.7835 | 65.4154 | 21196 | 8746 | 21200 | 46 | 4 | 8.6957 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | het | 83.0715 | 71.1515 | 99.7894 | 67.1619 | 21788 | 8834 | 21792 | 46 | 4 | 8.6957 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | het | 83.1462 | 71.2597 | 99.7920 | 67.1300 | 22062 | 8898 | 22066 | 46 | 4 | 8.6957 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 82.7292 | 74.3073 | 93.3042 | 85.8380 | 590 | 204 | 641 | 46 | 8 | 17.3913 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2751 | 93.2220 | 99.5351 | 28.3303 | 9765 | 710 | 9848 | 46 | 46 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0855 | 99.3885 | 98.7844 | 71.5296 | 3738 | 23 | 3738 | 46 | 44 | 95.6522 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0855 | 99.3885 | 98.7844 | 71.5296 | 3738 | 23 | 3738 | 46 | 44 | 95.6522 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.3829 | 99.4334 | 99.3324 | 81.4625 | 6844 | 39 | 6844 | 46 | 14 | 30.4348 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.6460 | 99.6990 | 99.5931 | 55.9882 | 11262 | 34 | 11258 | 46 | 37 | 80.4348 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.5277 | 86.8852 | 90.2335 | 62.7373 | 424 | 64 | 425 | 46 | 39 | 84.7826 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.6249 | 79.9127 | 92.2166 | 76.3031 | 549 | 138 | 545 | 46 | 28 | 60.8696 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m1_e0 | het | 77.8579 | 87.5000 | 70.1299 | 85.8326 | 56 | 8 | 108 | 46 | 30 | 65.2174 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m2_e0 | het | 80.7151 | 96.9697 | 69.1275 | 96.5865 | 64 | 2 | 103 | 46 | 12 | 26.0870 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m2_e1 | het | 80.7151 | 96.9697 | 69.1275 | 96.6682 | 64 | 2 | 103 | 46 | 12 | 26.0870 | |