PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21701-21750 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | * | map_l150_m1_e0 | homalt | 95.2710 | 91.5584 | 99.2974 | 89.4045 | 423 | 39 | 424 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5930 | 99.2808 | 99.9072 | 72.4630 | 5384 | 39 | 5384 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5930 | 99.2808 | 99.9072 | 72.4630 | 5384 | 39 | 5384 | 5 | 5 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 39 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8103 | 99.7360 | 99.8847 | 56.3092 | 14731 | 39 | 14733 | 17 | 4 | 23.5294 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8485 | 99.7730 | 99.9242 | 55.1449 | 17138 | 39 | 17136 | 13 | 8 | 61.5385 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7232 | 99.8605 | 99.5863 | 54.2148 | 27920 | 39 | 27921 | 116 | 9 | 7.7586 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l150_m1_e0 | * | 96.8582 | 94.5607 | 99.2701 | 82.3545 | 678 | 39 | 680 | 5 | 2 | 40.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l150_m2_e0 | * | 97.0527 | 94.8886 | 99.3179 | 83.4836 | 724 | 39 | 728 | 5 | 2 | 40.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 73.1672 | 58.9474 | 96.4286 | 75.9657 | 56 | 39 | 54 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m1_e0 | het | 97.2316 | 94.9807 | 99.5918 | 74.1652 | 738 | 39 | 732 | 3 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | homalt | 27.7922 | 86.5979 | 16.5522 | 77.7097 | 252 | 39 | 241 | 1215 | 1169 | 96.2140 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 48.7085 | 36.0656 | 75.0000 | 57.8947 | 22 | 39 | 12 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 39 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | I16_PLUS | map_siren | * | 59.4937 | 54.6512 | 65.2778 | 81.5385 | 47 | 39 | 47 | 25 | 24 | 96.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 58.6404 | 73.8255 | 48.6364 | 71.6495 | 110 | 39 | 107 | 113 | 113 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m2_e0 | * | 72.3005 | 66.3793 | 79.3814 | 88.9647 | 77 | 39 | 77 | 20 | 16 | 80.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m2_e1 | * | 72.3005 | 66.3793 | 79.3814 | 89.1134 | 77 | 39 | 77 | 20 | 16 | 80.0000 | |
| ghariani-varprowl | SNP | tv | map_l150_m0_e0 | het | 94.6019 | 98.6282 | 90.8914 | 86.7158 | 2804 | 39 | 2804 | 281 | 52 | 18.5053 | |
| hfeng-pmm1 | INDEL | * | map_l100_m0_e0 | het | 97.2294 | 96.1802 | 98.3017 | 84.1086 | 982 | 39 | 984 | 17 | 2 | 11.7647 | |
| hfeng-pmm1 | INDEL | * | map_l150_m1_e0 | het | 96.9158 | 95.4386 | 98.4394 | 87.9118 | 816 | 39 | 820 | 13 | 1 | 7.6923 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 87.2890 | 97.6896 | 78.8899 | 75.7087 | 1649 | 39 | 1663 | 445 | 65 | 14.6067 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e1 | homalt | 57.2597 | 41.7910 | 90.9091 | 76.9231 | 28 | 39 | 30 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 35.8318 | 82.3529 | 22.8972 | 89.5355 | 182 | 39 | 196 | 660 | 17 | 2.5758 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 40.3265 | 76.3636 | 27.3973 | 91.1318 | 126 | 39 | 120 | 318 | 10 | 3.1447 | |
| gduggal-bwaplat | INDEL | D6_15 | segdup | * | 87.8562 | 79.5812 | 98.0519 | 96.2676 | 152 | 39 | 151 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 68.2540 | 52.4390 | 97.7273 | 85.7605 | 43 | 39 | 43 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 95.7746 | 91.8919 | 100.0000 | 57.9448 | 442 | 39 | 442 | 0 | 0 | ||
| gduggal-bwavard | INDEL | * | map_l125_m1_e0 | hetalt | 0.0000 | 2.5000 | 0.0000 | 0.0000 | 1 | 39 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 52.0287 | 92.5996 | 36.1780 | 66.6261 | 488 | 39 | 496 | 875 | 863 | 98.6286 | |
| gduggal-bwavard | INDEL | D1_5 | HG002compoundhet | homalt | 90.4952 | 86.5979 | 94.7598 | 55.0098 | 252 | 39 | 217 | 12 | 12 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e1 | * | 92.6122 | 96.6292 | 88.9159 | 89.2090 | 1118 | 39 | 1099 | 137 | 20 | 14.5985 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 39 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | I1_5 | map_l125_m1_e0 | * | 94.6449 | 95.3012 | 93.9976 | 87.8589 | 791 | 39 | 783 | 50 | 20 | 40.0000 | |
| gduggal-bwavard | SNP | tv | map_l150_m0_e0 | homalt | 98.2846 | 97.0633 | 99.5370 | 78.0859 | 1289 | 39 | 1290 | 6 | 4 | 66.6667 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.3833 | 95.4225 | 89.5317 | 74.6685 | 813 | 39 | 650 | 76 | 31 | 40.7895 | |
| eyeh-varpipe | SNP | * | map_l100_m1_e0 | homalt | 99.8701 | 99.8556 | 99.8846 | 63.0607 | 26964 | 39 | 25962 | 30 | 16 | 53.3333 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e0 | homalt | 99.8725 | 99.8583 | 99.8868 | 65.3085 | 27484 | 39 | 26466 | 30 | 16 | 53.3333 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e1 | homalt | 99.8719 | 99.8597 | 99.8841 | 65.3160 | 27757 | 39 | 26718 | 31 | 16 | 51.6129 | |
| gduggal-bwafb | INDEL | D1_5 | map_siren | het | 98.2729 | 98.2872 | 98.2586 | 80.4710 | 2238 | 39 | 2257 | 40 | 2 | 5.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | HG002compoundhet | het | 28.9364 | 17.0213 | 96.4581 | 27.6068 | 8 | 39 | 817 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.7698 | 86.2191 | 89.3773 | 67.9201 | 244 | 39 | 244 | 29 | 29 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m1_e0 | het | 96.7920 | 94.9807 | 98.6737 | 82.4610 | 738 | 39 | 744 | 10 | 1 | 10.0000 | |
| gduggal-bwafb | SNP | tv | segdup | het | 98.1577 | 99.2623 | 97.0773 | 93.8623 | 5248 | 39 | 5248 | 158 | 6 | 3.7975 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.3739 | 93.3105 | 99.6454 | 63.1854 | 544 | 39 | 562 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5365 | 98.0213 | 99.0571 | 76.1911 | 1932 | 39 | 1891 | 18 | 6 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5365 | 98.0213 | 99.0571 | 76.1911 | 1932 | 39 | 1891 | 18 | 6 | 33.3333 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.8872 | 98.7069 | 99.0682 | 69.8958 | 2977 | 39 | 2977 | 28 | 9 | 32.1429 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8358 | 99.8591 | 99.8124 | 64.8592 | 27639 | 39 | 27673 | 52 | 16 | 30.7692 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.6146 | 97.6263 | 97.6030 | 66.9174 | 1604 | 39 | 1588 | 39 | 28 | 71.7949 | |