PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76251-76300 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3551 | 95.7767 | 98.9864 | 63.1106 | 6055 | 267 | 6055 | 62 | 49 | 79.0323 | |
| gduggal-bwaplat | SNP | tv | map_l100_m0_e0 | * | 70.5375 | 54.6373 | 99.4907 | 88.8156 | 6056 | 5028 | 6056 | 31 | 10 | 32.2581 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7447 | 99.7365 | 99.7529 | 55.2418 | 6056 | 16 | 6056 | 15 | 15 | 100.0000 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7119 | 99.4908 | 99.9340 | 54.5993 | 6057 | 31 | 6057 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5645 | 99.8024 | 99.3278 | 58.3031 | 6060 | 12 | 6058 | 41 | 41 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | homalt | 99.7612 | 99.7366 | 99.7859 | 69.7479 | 6058 | 16 | 6058 | 13 | 5 | 38.4615 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7530 | 99.7694 | 99.7366 | 55.3284 | 6058 | 14 | 6058 | 16 | 16 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e1 | homalt | 99.7857 | 99.6378 | 99.9340 | 66.1624 | 6052 | 22 | 6058 | 4 | 3 | 75.0000 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.4911 | 99.5894 | 99.3930 | 57.8569 | 6063 | 25 | 6059 | 37 | 15 | 40.5405 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7449 | 99.5401 | 99.9505 | 54.6217 | 6060 | 28 | 6060 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 70.1373 | 58.7236 | 87.0583 | 47.6620 | 6082 | 4275 | 6061 | 901 | 793 | 88.0133 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6888 | 99.4087 | 97.9793 | 56.5956 | 6052 | 36 | 6061 | 125 | 121 | 96.8000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4911 | 99.8188 | 99.1656 | 57.1479 | 6061 | 11 | 6061 | 51 | 49 | 96.0784 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7285 | 99.8188 | 99.6383 | 55.6923 | 6061 | 11 | 6061 | 22 | 22 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e1 | homalt | 99.7942 | 99.8024 | 99.7860 | 69.8227 | 6062 | 12 | 6062 | 13 | 5 | 38.4615 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | homalt | 99.7860 | 99.8024 | 99.7696 | 69.9104 | 6062 | 12 | 6062 | 14 | 5 | 35.7143 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 88.6139 | 96.1944 | 82.1409 | 64.2130 | 5384 | 213 | 6062 | 1318 | 1266 | 96.0546 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7040 | 99.5894 | 99.8189 | 55.7321 | 6063 | 25 | 6063 | 11 | 10 | 90.9091 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m2_e1 | homalt | 99.8435 | 99.7530 | 99.9341 | 68.3791 | 6059 | 15 | 6065 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.4217 | 95.9190 | 98.9723 | 59.1578 | 6064 | 258 | 6067 | 63 | 48 | 76.1905 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.4217 | 95.9190 | 98.9723 | 59.1578 | 6064 | 258 | 6067 | 63 | 48 | 76.1905 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6714 | 99.9177 | 99.4264 | 57.8940 | 6067 | 5 | 6067 | 35 | 34 | 97.1429 | |
| raldana-dualsentieon | INDEL | I16_PLUS | * | * | 96.7701 | 95.1388 | 98.4583 | 67.0904 | 6067 | 310 | 6067 | 95 | 85 | 89.4737 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8026 | 99.8847 | 99.7206 | 56.2796 | 6065 | 7 | 6068 | 17 | 17 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 49.1325 | 41.4437 | 60.3241 | 51.4691 | 3485 | 4924 | 6068 | 3991 | 3216 | 80.5813 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7452 | 99.9341 | 99.5570 | 56.8831 | 6068 | 4 | 6068 | 27 | 27 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7617 | 99.9506 | 99.5734 | 57.9016 | 6069 | 3 | 6069 | 26 | 25 | 96.1538 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7043 | 99.9506 | 99.4592 | 57.8271 | 6069 | 3 | 6069 | 33 | 32 | 96.9697 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7781 | 99.9506 | 99.6061 | 57.9561 | 6069 | 3 | 6069 | 24 | 23 | 95.8333 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7781 | 99.9671 | 99.5898 | 57.9684 | 6070 | 2 | 6070 | 25 | 24 | 96.0000 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7781 | 99.9671 | 99.5898 | 57.9481 | 6070 | 2 | 6070 | 25 | 24 | 96.0000 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9260 | 99.9343 | 99.9177 | 51.2440 | 6084 | 4 | 6070 | 5 | 2 | 40.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.4560 | 96.0456 | 98.9084 | 63.8644 | 6072 | 250 | 6071 | 67 | 60 | 89.5522 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.4560 | 96.0456 | 98.9084 | 63.8644 | 6072 | 250 | 6071 | 67 | 60 | 89.5522 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2992 | 97.3060 | 99.3129 | 66.5408 | 6068 | 168 | 6071 | 42 | 21 | 50.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7617 | 99.7043 | 99.8191 | 54.9748 | 6070 | 18 | 6071 | 11 | 9 | 81.8182 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7945 | 99.7208 | 99.8684 | 54.9696 | 6071 | 17 | 6072 | 8 | 7 | 87.5000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.2279 | 98.0433 | 75.3754 | 62.9512 | 6063 | 121 | 6073 | 1984 | 52 | 2.6210 | |
| anovak-vg | SNP | ti | map_l150_m2_e1 | homalt | 88.4680 | 79.7478 | 99.3294 | 72.4334 | 6135 | 1558 | 6073 | 41 | 36 | 87.8049 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | hetalt | 99.6433 | 99.5169 | 99.7701 | 22.0458 | 206 | 1 | 6075 | 14 | 13 | 92.8571 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.5170 | 96.4240 | 94.6270 | 76.4781 | 6013 | 223 | 6076 | 345 | 14 | 4.0580 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8767 | 99.8193 | 99.9342 | 54.4187 | 6077 | 11 | 6077 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8849 | 99.7700 | 100.0000 | 52.7633 | 6074 | 14 | 6077 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8931 | 99.7865 | 100.0000 | 53.0439 | 6075 | 13 | 6078 | 0 | 0 | ||
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.1957 | 56.1798 | 74.8799 | 61.8437 | 4700 | 3666 | 6078 | 2039 | 1497 | 73.4183 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.6774 | 94.4237 | 71.9631 | 77.4935 | 6062 | 358 | 6078 | 2368 | 2066 | 87.2466 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.6774 | 94.4237 | 71.9631 | 77.4935 | 6062 | 358 | 6078 | 2368 | 2066 | 87.2466 | |
| ckim-isaac | SNP | ti | map_l125_m2_e1 | homalt | 69.3119 | 53.0546 | 99.9342 | 64.5595 | 6079 | 5379 | 6079 | 4 | 4 | 100.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.8712 | 96.2797 | 82.5214 | 76.5304 | 6004 | 232 | 6081 | 1288 | 13 | 1.0093 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9507 | 99.9014 | 100.0000 | 54.7268 | 6082 | 6 | 6082 | 0 | 0 | ||