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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
31151-31200 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 94.5144 | 98.0315 | 91.2409 | 91.8416 | 498 | 10 | 500 | 48 | 3 | 6.2500 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | * | 95.4901 | 98.0237 | 93.0841 | 91.9135 | 496 | 10 | 498 | 37 | 4 | 10.8108 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 95.3323 | 98.0732 | 92.7405 | 92.6709 | 509 | 10 | 511 | 40 | 4 | 10.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e1 | * | 95.3476 | 98.1168 | 92.7305 | 92.6905 | 521 | 10 | 523 | 41 | 4 | 9.7561 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2339 | 98.8263 | 99.6450 | 83.3103 | 842 | 10 | 842 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8648 | 99.9188 | 30.3225 | 7384 | 10 | 7384 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5082 | 99.1830 | 99.8355 | 58.4841 | 1214 | 10 | 1214 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.9752 | 93.9394 | 98.1013 | 91.0986 | 155 | 10 | 155 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.5984 | 99.3324 | 99.8658 | 78.7628 | 1488 | 10 | 1488 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8006 | 99.8575 | 99.7437 | 62.4217 | 7009 | 10 | 7005 | 18 | 3 | 16.6667 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.1720 | 99.8658 | 94.6197 | 41.0468 | 7442 | 10 | 7439 | 423 | 4 | 0.9456 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4343 | 98.6357 | 98.2337 | 71.3284 | 723 | 10 | 723 | 13 | 9 | 69.2308 | |
| jli-custom | INDEL | * | map_l100_m1_e0 | homalt | 99.1850 | 99.1850 | 99.1850 | 82.2765 | 1217 | 10 | 1217 | 10 | 6 | 60.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | homalt | 99.1284 | 99.2070 | 99.0499 | 83.3333 | 1251 | 10 | 1251 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | homalt | 99.1420 | 99.2194 | 99.0647 | 83.4066 | 1271 | 10 | 1271 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l150_m0_e0 | het | 97.0674 | 97.0674 | 97.0674 | 91.5678 | 331 | 10 | 331 | 10 | 1 | 10.0000 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e0 | homalt | 99.4980 | 99.6277 | 99.3687 | 87.8966 | 2676 | 10 | 2676 | 17 | 6 | 35.2941 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e1 | homalt | 99.5040 | 99.6321 | 99.3761 | 87.9531 | 2708 | 10 | 2708 | 17 | 6 | 35.2941 | |
| hfeng-pmm2 | SNP | tv | map_l125_m0_e0 | homalt | 99.5050 | 99.5498 | 99.4602 | 72.5691 | 2211 | 10 | 2211 | 12 | 4 | 33.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9159 | 99.9115 | 99.9203 | 55.8220 | 11286 | 10 | 11286 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | segdup | hetalt | 96.0000 | 92.3077 | 100.0000 | 94.6374 | 120 | 10 | 122 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.2177 | 99.0809 | 99.3548 | 63.5417 | 1078 | 10 | 1078 | 7 | 4 | 57.1429 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.1554 | 89.6907 | 90.6250 | 93.3194 | 87 | 10 | 87 | 9 | 2 | 22.2222 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 92.1875 | 85.5072 | 100.0000 | 55.6391 | 59 | 10 | 59 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | segdup | * | 99.1501 | 99.0557 | 99.2446 | 94.2109 | 1049 | 10 | 1051 | 8 | 2 | 25.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.7138 | 93.2886 | 96.1832 | 76.0073 | 139 | 10 | 126 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m1_e0 | * | 94.9772 | 91.2281 | 99.0476 | 85.5769 | 104 | 10 | 104 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m2_e0 | * | 95.0673 | 91.3793 | 99.0654 | 86.6915 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m2_e1 | * | 95.0673 | 91.3793 | 99.0654 | 87.0303 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | HG002compoundhet | homalt | 99.9026 | 99.9073 | 99.8980 | 34.9324 | 10772 | 10 | 10772 | 11 | 11 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.5556 | 62.9630 | 94.4444 | 97.7584 | 17 | 10 | 17 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | * | map_l250_m1_e0 | homalt | 99.4527 | 99.5940 | 99.3117 | 86.9979 | 2453 | 10 | 2453 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7927 | 99.5863 | 100.0000 | 78.9598 | 2407 | 10 | 2407 | 0 | 0 | ||
| hfeng-pmm1 | SNP | tv | map_l125_m0_e0 | homalt | 99.5050 | 99.5498 | 99.4602 | 72.4501 | 2211 | 10 | 2211 | 12 | 4 | 33.3333 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m0_e0 | het | 58.3333 | 41.1765 | 100.0000 | 96.3636 | 7 | 10 | 6 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m0_e0 | homalt | 28.5714 | 16.6667 | 100.0000 | 91.6667 | 2 | 10 | 2 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | hetalt | 70.5882 | 54.5455 | 100.0000 | 82.1918 | 12 | 10 | 13 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | hetalt | 70.5882 | 54.5455 | 100.0000 | 84.1463 | 12 | 10 | 13 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | hetalt | 70.5882 | 54.5455 | 100.0000 | 84.7059 | 12 | 10 | 13 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m0_e0 | * | 50.0000 | 33.3333 | 100.0000 | 96.7949 | 5 | 10 | 5 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | segdup | homalt | 88.0952 | 78.7234 | 100.0000 | 87.9870 | 37 | 10 | 37 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | map_l100_m1_e0 | homalt | 99.2254 | 99.1850 | 99.2659 | 84.2639 | 1217 | 10 | 1217 | 9 | 5 | 55.5556 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | homalt | 99.2070 | 99.2070 | 99.2070 | 85.1821 | 1251 | 10 | 1251 | 10 | 5 | 50.0000 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e1 | homalt | 99.2194 | 99.2194 | 99.2194 | 85.2079 | 1271 | 10 | 1271 | 10 | 5 | 50.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.3666 | 99.2095 | 99.5242 | 88.1418 | 1255 | 10 | 1255 | 6 | 6 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6600 | 99.6762 | 99.6439 | 69.2790 | 3078 | 10 | 3078 | 11 | 9 | 81.8182 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.9027 | 95.4955 | 96.3134 | 65.1685 | 212 | 10 | 209 | 8 | 5 | 62.5000 | |
| dgrover-gatk | INDEL | * | map_l150_m0_e0 | het | 96.6534 | 97.0674 | 96.2428 | 93.6769 | 331 | 10 | 333 | 13 | 1 | 7.6923 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0605 | 98.9572 | 99.1641 | 72.4921 | 949 | 10 | 949 | 8 | 6 | 75.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 92.1875 | 85.5072 | 100.0000 | 54.9618 | 59 | 10 | 59 | 0 | 0 | ||