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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12151-12200 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.0626 | 98.7852 | 99.3416 | 58.5661 | 3822 | 47 | 3772 | 25 | 22 | 88.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5939 | 97.9738 | 99.2218 | 68.0216 | 3820 | 79 | 3825 | 30 | 15 | 50.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5873 | 97.9738 | 99.2084 | 62.4678 | 3820 | 79 | 3760 | 30 | 27 | 90.0000 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.3300 | 94.5545 | 96.1183 | 76.3193 | 3820 | 220 | 3541 | 143 | 117 | 81.8182 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.0004 | 98.7335 | 95.3271 | 68.1496 | 3820 | 49 | 3774 | 185 | 180 | 97.2973 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7291 | 97.9738 | 99.4961 | 65.8453 | 3820 | 79 | 4344 | 22 | 13 | 59.0909 | |
| ckim-dragen | SNP | tv | map_l100_m0_e0 | homalt | 99.4789 | 99.2720 | 99.6867 | 59.7308 | 3818 | 28 | 3818 | 12 | 10 | 83.3333 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0133 | 98.1991 | 99.8412 | 55.4691 | 3817 | 70 | 3772 | 6 | 3 | 50.0000 | |
| cchapple-custom | SNP | tv | map_l150_m1_e0 | homalt | 98.3252 | 96.7055 | 100.0000 | 67.0155 | 3816 | 130 | 3814 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l250_m2_e1 | * | 64.5467 | 47.7776 | 99.4527 | 91.0189 | 3816 | 4171 | 3816 | 21 | 4 | 19.0476 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6815 | 97.8712 | 99.5052 | 68.1063 | 3816 | 83 | 3821 | 19 | 14 | 73.6842 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0131 | 98.1219 | 99.9207 | 56.5287 | 3814 | 73 | 3779 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6163 | 97.7687 | 99.4788 | 68.1894 | 3812 | 87 | 3817 | 20 | 13 | 65.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6673 | 97.7687 | 99.5826 | 65.8986 | 3812 | 87 | 3817 | 16 | 9 | 56.2500 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.1333 | 97.5422 | 98.7316 | 27.8079 | 3810 | 96 | 3814 | 49 | 41 | 83.6735 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.5046 | 93.7269 | 99.4518 | 53.6591 | 3810 | 255 | 3810 | 21 | 4 | 19.0476 | |
| gduggal-snapplat | SNP | ti | map_l125_m0_e0 | homalt | 91.7078 | 84.8363 | 99.7904 | 71.0087 | 3810 | 681 | 3809 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.5902 | 93.7269 | 99.6340 | 52.3424 | 3810 | 255 | 3811 | 14 | 3 | 21.4286 | |
| dgrover-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.4517 | 99.0380 | 99.8689 | 62.1627 | 3809 | 37 | 3809 | 5 | 3 | 60.0000 | |
| anovak-vg | INDEL | D16_PLUS | * | * | 64.9199 | 56.1321 | 76.9701 | 52.6377 | 3808 | 2976 | 3780 | 1131 | 815 | 72.0601 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 68.7702 | 67.0305 | 70.6027 | 63.8943 | 3808 | 1873 | 5471 | 2278 | 1700 | 74.6269 | |
| gduggal-bwafb | SNP | tv | map_l100_m0_e0 | homalt | 99.3993 | 98.9600 | 99.8426 | 67.1804 | 3806 | 40 | 3806 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.1407 | 94.4403 | 100.0000 | 26.2560 | 3805 | 224 | 3831 | 0 | 0 | ||
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.5847 | 98.2941 | 91.1451 | 66.4714 | 3803 | 66 | 3757 | 365 | 325 | 89.0411 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 85.0816 | 98.0660 | 75.1335 | 65.0221 | 3803 | 75 | 3798 | 1257 | 30 | 2.3866 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.9023 | 98.2941 | 95.5493 | 68.7291 | 3803 | 66 | 3757 | 175 | 166 | 94.8571 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0766 | 94.3658 | 99.9478 | 25.1564 | 3802 | 227 | 3827 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 80.6495 | 78.6024 | 82.8061 | 85.2794 | 3802 | 1035 | 3848 | 799 | 94 | 11.7647 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.1229 | 98.2424 | 90.3349 | 66.0632 | 3801 | 68 | 3776 | 404 | 398 | 98.5149 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0007 | 98.1907 | 97.8114 | 63.8674 | 3799 | 70 | 3754 | 84 | 80 | 95.2381 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8130 | 98.1907 | 99.4431 | 58.6332 | 3799 | 70 | 3750 | 21 | 16 | 76.1905 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.8252 | 97.9371 | 97.7135 | 64.8985 | 3798 | 80 | 3718 | 87 | 10 | 11.4943 | |
| gduggal-snapplat | SNP | ti | map_l250_m1_e0 | * | 88.1520 | 82.9439 | 94.0579 | 93.4361 | 3798 | 781 | 3799 | 240 | 126 | 52.5000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.3948 | 97.3583 | 97.4313 | 62.8424 | 3796 | 103 | 3793 | 100 | 40 | 40.0000 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.2548 | 98.6999 | 99.8159 | 61.6440 | 3796 | 50 | 3796 | 7 | 4 | 57.1429 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | homalt | 99.1768 | 98.6739 | 99.6848 | 64.1086 | 3795 | 51 | 3795 | 12 | 10 | 83.3333 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9960 | 94.1673 | 100.0000 | 24.9114 | 3794 | 235 | 3813 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.3163 | 93.0341 | 95.6344 | 40.1307 | 3793 | 284 | 4206 | 192 | 187 | 97.3958 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9697 | 94.1176 | 100.0000 | 25.6765 | 3792 | 237 | 3818 | 0 | 0 | ||
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.3224 | 97.0558 | 97.5904 | 32.2861 | 3791 | 115 | 3807 | 94 | 61 | 64.8936 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3287 | 96.4131 | 96.2444 | 58.5642 | 3790 | 141 | 3844 | 150 | 63 | 42.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.7084 | 94.4652 | 99.0608 | 42.7483 | 3789 | 222 | 3797 | 36 | 12 | 33.3333 | |
| gduggal-snapfb | SNP | * | map_l150_m0_e0 | homalt | 95.7170 | 92.6388 | 99.0068 | 86.9094 | 3788 | 301 | 3788 | 38 | 12 | 31.5789 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5615 | 93.9687 | 99.3014 | 25.3607 | 3786 | 243 | 4264 | 30 | 29 | 96.6667 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.9399 | 93.0416 | 99.0245 | 57.0442 | 3784 | 283 | 3756 | 37 | 32 | 86.4865 | |
| jlack-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.0571 | 98.3359 | 99.7889 | 62.7592 | 3782 | 64 | 3782 | 8 | 5 | 62.5000 | |
| gduggal-snapvard | SNP | tv | map_l150_m1_e0 | homalt | 97.7764 | 95.8439 | 99.7884 | 71.1912 | 3782 | 164 | 3772 | 8 | 6 | 75.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6894 | 93.8694 | 99.6841 | 24.6230 | 3782 | 247 | 3787 | 12 | 12 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8132 | 93.8694 | 99.9475 | 22.1609 | 3782 | 247 | 3809 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 50.1118 | 85.0427 | 35.5215 | 51.6283 | 3781 | 665 | 3804 | 6905 | 6879 | 99.6235 | |