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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70151-70200 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7294 | 97.9480 | 99.5234 | 39.3399 | 5012 | 105 | 5012 | 24 | 23 | 95.8333 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 86.4388 | 78.8732 | 95.6098 | 71.0452 | 392 | 105 | 392 | 18 | 17 | 94.4444 | |
| raldana-dualsentieon | SNP | tv | map_l100_m1_e0 | het | 99.1452 | 99.3189 | 98.9720 | 68.0652 | 15312 | 105 | 15308 | 159 | 1 | 0.6289 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e0 | het | 99.1552 | 99.3345 | 98.9766 | 69.6214 | 15672 | 105 | 15668 | 162 | 1 | 0.6173 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e1 | het | 99.1544 | 99.3412 | 98.9684 | 69.6842 | 15833 | 105 | 15829 | 165 | 1 | 0.6061 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e1 | * | 99.0225 | 99.0871 | 98.9579 | 75.9025 | 11397 | 105 | 11395 | 120 | 3 | 2.5000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.0106 | 92.2964 | 91.7266 | 69.6573 | 1258 | 105 | 1275 | 115 | 43 | 37.3913 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.6087 | 82.5871 | 91.0420 | 67.8424 | 498 | 105 | 498 | 49 | 34 | 69.3878 | |
| dgrover-gatk | SNP | ti | map_l100_m0_e0 | het | 99.1285 | 99.2491 | 99.0081 | 74.4536 | 13878 | 105 | 13875 | 139 | 28 | 20.1439 | |
| dgrover-gatk | INDEL | D16_PLUS | * | hetalt | 96.8869 | 94.5680 | 99.3224 | 39.0920 | 1828 | 105 | 2052 | 14 | 14 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | HG002compoundhet | * | 95.7397 | 95.5147 | 95.9657 | 35.4749 | 2236 | 105 | 2236 | 94 | 91 | 96.8085 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8591 | 96.7290 | 96.9897 | 63.1840 | 3105 | 105 | 3093 | 96 | 93 | 96.8750 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 88.0775 | 95.1208 | 82.0053 | 38.4898 | 2047 | 105 | 3427 | 752 | 750 | 99.7340 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e1 | het | 96.0818 | 95.5186 | 96.6518 | 82.4853 | 2238 | 105 | 3031 | 105 | 69 | 65.7143 | |
| egarrison-hhga | SNP | ti | map_l150_m0_e0 | het | 98.7730 | 97.9203 | 99.6406 | 81.1953 | 4991 | 106 | 4991 | 18 | 6 | 33.3333 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m1_e0 | homalt | 69.5157 | 53.5088 | 99.1870 | 82.9167 | 122 | 106 | 122 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | HG002complexvar | hetalt | 95.4701 | 91.3328 | 100.0000 | 52.5604 | 1117 | 106 | 1158 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9340 | 99.3274 | 98.5437 | 62.8374 | 15654 | 106 | 15496 | 229 | 203 | 88.6463 | |
| dgrover-gatk | INDEL | I6_15 | * | het | 99.0704 | 98.9435 | 99.1977 | 59.7099 | 9927 | 106 | 9891 | 80 | 53 | 66.2500 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.4748 | 95.1598 | 99.9052 | 33.6375 | 2084 | 106 | 2107 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l150_m1_e0 | het | 99.0308 | 99.1431 | 98.9188 | 80.0370 | 12264 | 106 | 12260 | 134 | 29 | 21.6418 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e1 | * | 97.3869 | 97.1778 | 97.5968 | 97.6235 | 3650 | 106 | 3655 | 90 | 41 | 45.5556 | |
| jlack-gatk | INDEL | * | HG002compoundhet | het | 87.1214 | 97.4108 | 78.7981 | 78.1044 | 3988 | 106 | 3750 | 1009 | 902 | 89.3954 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.5563 | 93.4447 | 99.8823 | 33.2941 | 1511 | 106 | 1697 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | hetalt | 95.3064 | 91.3328 | 99.6416 | 58.0293 | 1117 | 106 | 1112 | 4 | 4 | 100.0000 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | homalt | 98.7168 | 97.6397 | 99.8179 | 72.4456 | 4385 | 106 | 4385 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | ti | map_l250_m1_e0 | het | 97.6625 | 96.4286 | 98.9284 | 86.8086 | 2862 | 106 | 2862 | 31 | 16 | 51.6129 | |
| ckim-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.4701 | 91.3328 | 100.0000 | 52.5604 | 1117 | 106 | 1158 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4541 | 99.1074 | 99.8032 | 43.2339 | 11769 | 106 | 11664 | 23 | 18 | 78.2609 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4435 | 95.6053 | 99.3537 | 62.1556 | 2306 | 106 | 2306 | 15 | 13 | 86.6667 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m0_e0 | het | 64.2140 | 47.5248 | 98.9691 | 97.6861 | 96 | 106 | 96 | 1 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I6_15 | map_siren | * | 68.6489 | 65.2459 | 72.4265 | 84.2319 | 199 | 106 | 197 | 75 | 64 | 85.3333 | |
| gduggal-snapfb | INDEL | * | map_l150_m2_e0 | * | 93.6073 | 92.4716 | 94.7712 | 89.9313 | 1302 | 106 | 1305 | 72 | 21 | 29.1667 | |
| gduggal-snapfb | INDEL | * | map_siren | hetalt | 66.5492 | 57.0850 | 79.7753 | 93.0196 | 141 | 106 | 71 | 18 | 14 | 77.7778 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.6326 | 78.2787 | 89.7727 | 73.4807 | 382 | 106 | 474 | 54 | 50 | 92.5926 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e0 | homalt | 81.2948 | 68.9150 | 99.0964 | 84.0614 | 235 | 106 | 329 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e1 | homalt | 81.4279 | 69.0962 | 99.1176 | 84.0450 | 237 | 106 | 337 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m2_e1 | * | 56.3873 | 42.7027 | 82.9787 | 91.9105 | 79 | 106 | 78 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.3677 | 72.6804 | 89.8734 | 76.7647 | 282 | 106 | 284 | 32 | 30 | 93.7500 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5046 | 99.0824 | 99.9304 | 64.6956 | 11446 | 106 | 11491 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5046 | 99.0824 | 99.9304 | 64.6956 | 11446 | 106 | 11491 | 8 | 6 | 75.0000 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e0 | het | 98.9943 | 98.9849 | 99.0036 | 71.3714 | 10336 | 106 | 10334 | 104 | 55 | 52.8846 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | het | 99.0048 | 98.9955 | 99.0141 | 71.4321 | 10447 | 106 | 10445 | 104 | 55 | 52.8846 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | * | 99.6493 | 99.5895 | 99.7091 | 40.7188 | 25716 | 106 | 25707 | 75 | 61 | 81.3333 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 51.5722 | 36.5269 | 87.6923 | 81.3754 | 61 | 106 | 57 | 8 | 4 | 50.0000 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 106 | 0 | 0 | 0 | |||
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.3092 | 94.0011 | 98.7334 | 63.5924 | 1661 | 106 | 1637 | 21 | 7 | 33.3333 | |
| gduggal-snapvard | SNP | tv | map_l125_m0_e0 | homalt | 97.4654 | 95.2274 | 99.8111 | 72.0544 | 2115 | 106 | 2114 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.3667 | 99.3548 | 95.4567 | 60.8139 | 16323 | 106 | 16325 | 777 | 514 | 66.1519 | |