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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18901-18950 / 86044 show all | |||||||||||||||
| jli-custom | SNP | ti | map_l125_m1_e0 | * | 99.3574 | 99.1001 | 99.6162 | 66.6526 | 29071 | 264 | 29069 | 112 | 41 | 36.6071 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9205 | 98.2346 | 99.6161 | 72.9579 | 15302 | 275 | 15309 | 59 | 45 | 76.2712 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.8452 | 98.0861 | 99.6161 | 43.6147 | 410 | 8 | 519 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6797 | 99.7436 | 99.6160 | 62.2679 | 7001 | 18 | 7004 | 27 | 15 | 55.5556 | |
| hfeng-pmm3 | SNP | * | segdup | * | 99.7170 | 99.8183 | 99.6159 | 89.5042 | 28016 | 51 | 28010 | 108 | 8 | 7.4074 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4064 | 99.1978 | 99.6159 | 41.7997 | 7296 | 59 | 7261 | 28 | 6 | 21.4286 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0921 | 92.8093 | 99.6158 | 30.7146 | 13023 | 1009 | 13222 | 51 | 51 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3567 | 99.0991 | 99.6157 | 72.3838 | 1320 | 12 | 1296 | 5 | 3 | 60.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0845 | 92.7950 | 99.6157 | 30.7178 | 13021 | 1011 | 13220 | 51 | 51 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.8715 | 98.1383 | 99.6157 | 72.7478 | 15287 | 290 | 15293 | 59 | 49 | 83.0508 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9760 | 98.3446 | 99.6155 | 65.8661 | 2614 | 44 | 2591 | 10 | 8 | 80.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l150_m1_e0 | * | 67.6240 | 51.1858 | 99.6154 | 96.0336 | 259 | 247 | 259 | 1 | 0 | 0.0000 | |
| jli-custom | SNP | ti | map_l125_m2_e1 | * | 99.3704 | 99.1266 | 99.6153 | 68.7864 | 30302 | 267 | 30300 | 117 | 41 | 35.0427 | |
| dgrover-gatk | SNP | tv | HG002compoundhet | het | 99.6470 | 99.6790 | 99.6151 | 55.4242 | 4658 | 15 | 4658 | 18 | 10 | 55.5556 | |
| cchapple-custom | INDEL | D1_5 | HG002complexvar | homalt | 99.5858 | 99.5565 | 99.6150 | 53.3069 | 10551 | 47 | 10092 | 39 | 36 | 92.3077 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m2_e0 | het | 96.4634 | 93.5052 | 99.6150 | 78.6168 | 1814 | 126 | 1811 | 7 | 2 | 28.5714 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0246 | 94.5657 | 99.6148 | 24.0847 | 6456 | 371 | 6465 | 25 | 25 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | HG002complexvar | het | 99.2036 | 98.7960 | 99.6147 | 56.4110 | 17970 | 219 | 19130 | 74 | 62 | 83.7838 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7941 | 99.9742 | 99.6146 | 59.9671 | 3877 | 1 | 3877 | 15 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9211 | 94.3694 | 99.6146 | 31.5700 | 12989 | 775 | 13182 | 51 | 50 | 98.0392 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8950 | 94.3201 | 99.6144 | 34.3188 | 13235 | 797 | 13433 | 52 | 50 | 96.1538 | |
| egarrison-hhga | SNP | ti | map_l250_m2_e0 | * | 98.8124 | 98.0232 | 99.6144 | 88.6331 | 4909 | 99 | 4909 | 19 | 9 | 47.3684 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9287 | 94.3839 | 99.6144 | 27.9429 | 7714 | 459 | 7750 | 30 | 29 | 96.6667 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.7592 | 72.2584 | 99.6141 | 35.3161 | 1555 | 597 | 1549 | 6 | 4 | 66.6667 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | homalt | 98.3607 | 97.1386 | 99.6139 | 76.6034 | 1290 | 38 | 1290 | 5 | 5 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6964 | 99.7792 | 99.6138 | 75.7541 | 3615 | 8 | 3611 | 14 | 6 | 42.8571 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | * | 99.4954 | 99.3774 | 99.6137 | 58.2041 | 76459 | 479 | 76328 | 296 | 257 | 86.8243 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.6951 | 99.7767 | 99.6136 | 53.1211 | 6701 | 15 | 6703 | 26 | 9 | 34.6154 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7892 | 94.1206 | 99.6136 | 34.1069 | 13207 | 825 | 13406 | 52 | 51 | 98.0769 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4656 | 99.3180 | 99.6136 | 37.1650 | 6699 | 46 | 6703 | 26 | 25 | 96.1538 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.9176 | 98.2314 | 99.6135 | 43.6336 | 10886 | 196 | 10826 | 42 | 39 | 92.8571 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.6072 | 95.6801 | 99.6135 | 53.2309 | 1041 | 47 | 1031 | 4 | 4 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002compoundhet | hetalt | 60.1689 | 43.1017 | 99.6134 | 31.8701 | 831 | 1097 | 773 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | * | map_l125_m0_e0 | homalt | 99.6052 | 99.5977 | 99.6126 | 70.8610 | 6685 | 27 | 6685 | 26 | 9 | 34.6154 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | homalt | 99.5977 | 99.5828 | 99.6125 | 70.7306 | 6684 | 28 | 6684 | 26 | 9 | 34.6154 | |
| astatham-gatk | SNP | tv | map_l150_m1_e0 | * | 91.6254 | 84.8240 | 99.6125 | 79.0350 | 9256 | 1656 | 9254 | 36 | 13 | 36.1111 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.6124 | 99.6124 | 99.6124 | 80.3503 | 257 | 1 | 257 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3771 | 99.1429 | 99.6124 | 57.9633 | 1041 | 9 | 1028 | 4 | 1 | 25.0000 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7626 | 99.9133 | 99.6124 | 36.8335 | 4612 | 4 | 4626 | 18 | 7 | 38.8889 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | het | 99.1733 | 98.7383 | 99.6122 | 51.3027 | 20503 | 262 | 20294 | 79 | 31 | 39.2405 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1370 | 98.6663 | 99.6121 | 66.8126 | 3847 | 52 | 3852 | 15 | 10 | 66.6667 | |
| asubramanian-gatk | SNP | ti | map_l250_m2_e1 | * | 33.6335 | 20.2325 | 99.6120 | 98.2384 | 1027 | 4049 | 1027 | 4 | 1 | 25.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6764 | 99.7409 | 99.6119 | 68.7361 | 3080 | 8 | 3080 | 12 | 9 | 75.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6119 | 99.6119 | 99.6119 | 77.7426 | 770 | 3 | 770 | 3 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6119 | 99.6119 | 99.6119 | 77.7554 | 770 | 3 | 770 | 3 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6764 | 99.7409 | 99.6119 | 69.3315 | 3080 | 8 | 3080 | 12 | 9 | 75.0000 | |
| rpoplin-dv42 | SNP | tv | map_siren | * | 99.5468 | 99.4818 | 99.6119 | 56.8797 | 45692 | 238 | 45686 | 178 | 89 | 50.0000 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6439 | 99.6762 | 99.6117 | 68.6485 | 3078 | 10 | 3078 | 12 | 8 | 66.6667 | |
| ckim-isaac | SNP | ti | map_l250_m0_e0 | het | 70.8075 | 54.9251 | 99.6117 | 94.7975 | 513 | 421 | 513 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.0680 | 94.6510 | 99.6117 | 25.8826 | 7662 | 433 | 7696 | 30 | 29 | 96.6667 | |