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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46301-46350 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | ti | map_l250_m0_e0 | het | 84.2801 | 77.7302 | 92.0354 | 96.9671 | 726 | 208 | 728 | 63 | 27 | 42.8571 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.8525 | 100.0000 | 92.0354 | 67.8977 | 311 | 0 | 312 | 27 | 27 | 100.0000 | |
| ciseli-custom | SNP | ti | map_siren | het | 88.8574 | 85.8902 | 92.0370 | 60.6835 | 53580 | 8802 | 53468 | 4626 | 118 | 2.5508 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 83.8715 | 77.0358 | 92.0384 | 65.7901 | 1419 | 423 | 1341 | 116 | 85 | 73.2759 | |
| eyeh-varpipe | SNP | tv | map_siren | het | 95.7583 | 99.7903 | 92.0396 | 63.5402 | 28549 | 60 | 28096 | 2430 | 18 | 0.7407 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.5339 | 85.2853 | 92.0398 | 83.8251 | 568 | 98 | 555 | 48 | 27 | 56.2500 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.5339 | 85.2853 | 92.0398 | 83.8251 | 568 | 98 | 555 | 48 | 27 | 56.2500 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002complexvar | * | 83.1933 | 75.8977 | 92.0405 | 54.5245 | 1247 | 396 | 1272 | 110 | 107 | 97.2727 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 94.6355 | 97.3799 | 92.0415 | 69.2422 | 1338 | 36 | 1330 | 115 | 100 | 86.9565 | |
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | * | 94.4568 | 97.0001 | 92.0434 | 74.6951 | 23766 | 735 | 23680 | 2047 | 149 | 7.2789 | |
| gduggal-snapfb | INDEL | I6_15 | map_l100_m1_e0 | * | 81.3037 | 72.8070 | 92.0455 | 76.5957 | 83 | 31 | 81 | 7 | 6 | 85.7143 | |
| eyeh-varpipe | INDEL | D1_5 | * | homalt | 95.4519 | 99.1150 | 92.0499 | 59.2107 | 48493 | 433 | 48444 | 4184 | 4111 | 98.2553 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 70.1173 | 56.6230 | 92.0561 | 70.3396 | 389 | 298 | 394 | 34 | 20 | 58.8235 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.5209 | 83.4104 | 92.0575 | 35.5502 | 1443 | 287 | 1472 | 127 | 115 | 90.5512 | |
| eyeh-varpipe | INDEL | D1_5 | map_siren | hetalt | 50.2165 | 34.5238 | 92.0635 | 93.5910 | 29 | 55 | 58 | 5 | 3 | 60.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.5484 | 95.0820 | 92.0635 | 90.0943 | 58 | 3 | 58 | 5 | 2 | 40.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 78.1011 | 67.8161 | 92.0635 | 99.9065 | 59 | 28 | 58 | 5 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e0 | het | 89.9225 | 87.8788 | 92.0635 | 96.0427 | 58 | 8 | 58 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e1 | het | 89.9225 | 87.8788 | 92.0635 | 96.1632 | 58 | 8 | 58 | 5 | 1 | 20.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.8422 | 99.9434 | 92.0643 | 68.8076 | 1766 | 1 | 1775 | 153 | 105 | 68.6275 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 70.4260 | 57.0216 | 92.0694 | 94.2733 | 739 | 557 | 743 | 64 | 15 | 23.4375 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.8716 | 100.0000 | 92.0705 | 66.6667 | 211 | 0 | 209 | 18 | 17 | 94.4444 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0006 | 75.5556 | 92.0732 | 84.2949 | 544 | 176 | 604 | 52 | 4 | 7.6923 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.4136 | 99.0024 | 92.0759 | 67.6063 | 55076 | 555 | 55287 | 4758 | 565 | 11.8747 | |
| gduggal-snapfb | INDEL | * | func_cds | het | 88.4234 | 85.0467 | 92.0792 | 43.5754 | 182 | 32 | 186 | 16 | 10 | 62.5000 | |
| ckim-vqsr | INDEL | * | map_l250_m2_e0 | * | 93.4524 | 94.8640 | 92.0821 | 97.4260 | 314 | 17 | 314 | 27 | 2 | 7.4074 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.6084 | 99.4152 | 92.0824 | 70.5431 | 850 | 5 | 849 | 73 | 4 | 5.4795 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m2_e0 | het | 94.8148 | 97.7099 | 92.0863 | 88.5691 | 128 | 3 | 128 | 11 | 6 | 54.5455 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.3020 | 94.5490 | 92.0875 | 85.9655 | 3920 | 226 | 3829 | 329 | 86 | 26.1398 | |
| qzeng-custom | SNP | * | map_l150_m0_e0 | het | 75.9917 | 64.6851 | 92.0882 | 93.9068 | 5136 | 2804 | 5098 | 438 | 367 | 83.7900 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | homalt | 92.8474 | 93.6170 | 92.0904 | 71.4055 | 308 | 21 | 326 | 28 | 27 | 96.4286 | |
| gduggal-snapfb | INDEL | I1_5 | * | het | 94.5346 | 97.1091 | 92.0931 | 57.7460 | 76756 | 2285 | 82322 | 7068 | 1603 | 22.6797 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.1000 | 98.3080 | 92.0949 | 58.3471 | 1162 | 20 | 1165 | 100 | 99 | 99.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.7238 | 95.4086 | 92.0974 | 77.5572 | 2078 | 100 | 1853 | 159 | 148 | 93.0818 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.3110 | 82.9974 | 92.0976 | 77.0179 | 947 | 194 | 944 | 81 | 55 | 67.9012 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 89.3164 | 86.6966 | 92.0994 | 71.2589 | 4438 | 681 | 4523 | 388 | 351 | 90.4639 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 89.5692 | 87.1711 | 92.1030 | 51.3163 | 3214 | 473 | 3219 | 276 | 266 | 96.3768 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m0_e0 | * | 79.6826 | 70.2128 | 92.1053 | 89.7849 | 33 | 14 | 35 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | segdup | het | 95.8904 | 100.0000 | 92.1053 | 95.6867 | 37 | 0 | 35 | 3 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | map_l150_m0_e0 | * | 94.4299 | 96.8750 | 92.1053 | 92.2607 | 31 | 1 | 35 | 3 | 1 | 33.3333 | |
| cchapple-custom | INDEL | I6_15 | map_l100_m2_e0 | het | 91.1243 | 90.1639 | 92.1053 | 88.7073 | 55 | 6 | 70 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 94.5946 | 97.2222 | 92.1053 | 70.3125 | 35 | 1 | 35 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | * | 94.8478 | 97.7523 | 92.1110 | 81.9172 | 29921 | 688 | 29540 | 2530 | 139 | 5.4941 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002complexvar | * | 88.9462 | 85.9864 | 92.1169 | 57.7872 | 4559 | 743 | 4569 | 391 | 292 | 74.6803 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.5242 | 92.9345 | 92.1175 | 55.9701 | 12785 | 972 | 12446 | 1065 | 828 | 77.7465 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.5242 | 92.9345 | 92.1175 | 55.9701 | 12785 | 972 | 12446 | 1065 | 828 | 77.7465 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 93.3394 | 94.5919 | 92.1197 | 68.0226 | 5772 | 330 | 5728 | 490 | 477 | 97.3469 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 95.2221 | 98.5390 | 92.1212 | 86.6783 | 1821 | 27 | 1824 | 156 | 11 | 7.0513 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8274 | 91.5346 | 92.1220 | 61.6285 | 2022 | 187 | 2023 | 173 | 118 | 68.2081 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.8674 | 53.7223 | 92.1233 | 62.9442 | 267 | 230 | 269 | 23 | 17 | 73.9130 | |