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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50351-50400 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 90.2206 | 83.1563 | 98.5965 | 64.1509 | 548 | 111 | 562 | 8 | 8 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.0103 | 94.5783 | 99.5706 | 64.1494 | 8792 | 504 | 8811 | 38 | 38 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9137 | 96.7068 | 99.1511 | 64.1489 | 5139 | 175 | 5139 | 44 | 40 | 90.9091 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.6171 | 94.9468 | 98.3471 | 64.1481 | 714 | 38 | 714 | 12 | 9 | 75.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7214 | 91.1483 | 98.5861 | 64.1475 | 762 | 74 | 767 | 11 | 6 | 54.5455 | |
| anovak-vg | INDEL | I1_5 | HG002compoundhet | homalt | 40.4620 | 88.4498 | 26.2307 | 64.1465 | 291 | 38 | 1071 | 3012 | 2451 | 81.3745 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8222 | 99.7630 | 99.8814 | 64.1429 | 1684 | 4 | 1684 | 2 | 2 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.8795 | 96.2316 | 82.5710 | 64.1403 | 1047 | 41 | 1047 | 221 | 97 | 43.8914 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.0583 | 99.0196 | 97.1154 | 64.1379 | 101 | 1 | 101 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.4785 | 99.4206 | 99.5365 | 64.1313 | 858 | 5 | 859 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 40.9449 | 27.6596 | 78.7879 | 64.1304 | 13 | 34 | 26 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m1_e0 | homalt | 84.6124 | 73.3575 | 99.9469 | 64.1277 | 13175 | 4785 | 13175 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | hetalt | 98.4111 | 97.0028 | 99.8609 | 64.1248 | 10842 | 335 | 10768 | 15 | 15 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4393 | 99.6255 | 99.2537 | 64.1232 | 266 | 1 | 266 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | * | het | 98.7882 | 99.4997 | 98.0868 | 64.1200 | 11534 | 58 | 11484 | 224 | 173 | 77.2321 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.5216 | 89.4845 | 95.7722 | 64.1176 | 3489 | 410 | 3330 | 147 | 104 | 70.7483 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8220 | 99.6445 | 100.0000 | 64.1135 | 1682 | 6 | 1682 | 0 | 0 | ||
| jli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4506 | 99.7507 | 99.1523 | 64.1117 | 27609 | 69 | 27604 | 236 | 18 | 7.6271 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | homalt | 99.1768 | 98.6739 | 99.6848 | 64.1086 | 3795 | 51 | 3795 | 12 | 10 | 83.3333 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 51.3330 | 45.2682 | 59.2743 | 64.1063 | 1612 | 1949 | 1601 | 1100 | 1012 | 92.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.3842 | 96.8198 | 100.0000 | 64.1060 | 274 | 9 | 271 | 0 | 0 | ||
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.3163 | 99.4953 | 99.1379 | 64.1052 | 1380 | 7 | 1380 | 12 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.9045 | 99.8092 | 100.0000 | 64.1043 | 523 | 1 | 523 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | map_l100_m0_e0 | hetalt | 93.3333 | 87.5000 | 100.0000 | 64.1026 | 14 | 2 | 14 | 0 | 0 | ||
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 88.0000 | 100.0000 | 78.5714 | 64.1026 | 1 | 0 | 11 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m0_e0 | hetalt | 93.3333 | 87.5000 | 100.0000 | 64.1026 | 14 | 2 | 14 | 0 | 0 | ||
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.3607 | 94.8571 | 100.0000 | 64.1026 | 166 | 9 | 168 | 0 | 0 | ||
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 100.0000 | 100.0000 | 100.0000 | 64.1026 | 13 | 0 | 14 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.1818 | 89.1304 | 97.6190 | 64.1026 | 41 | 5 | 41 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | map_l100_m1_e0 | * | 99.6055 | 99.4531 | 99.7584 | 64.1006 | 24367 | 134 | 24363 | 59 | 17 | 28.8136 | |
| rpoplin-dv42 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8590 | 99.8446 | 99.8734 | 64.1005 | 27635 | 43 | 27622 | 35 | 19 | 54.2857 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.9262 | 92.6316 | 99.4638 | 64.1001 | 352 | 28 | 371 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.6583 | 87.5470 | 98.4034 | 64.1001 | 1863 | 265 | 1849 | 30 | 27 | 90.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5085 | 97.7714 | 99.2568 | 64.1000 | 9476 | 216 | 9482 | 71 | 46 | 64.7887 | |
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | het | 95.5765 | 97.8972 | 93.3633 | 64.0953 | 838 | 18 | 830 | 59 | 57 | 96.6102 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6736 | 99.4668 | 99.8812 | 64.0938 | 1679 | 9 | 1682 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8035 | 95.8873 | 99.7978 | 64.0929 | 2961 | 127 | 2961 | 6 | 4 | 66.6667 | |
| jlack-gatk | INDEL | I16_PLUS | HG002complexvar | het | 98.7797 | 98.0451 | 99.5253 | 64.0909 | 652 | 13 | 629 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3955 | 88.2236 | 96.9815 | 64.0909 | 884 | 118 | 996 | 31 | 27 | 87.0968 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 23.0092 | 16.5049 | 37.9747 | 64.0909 | 34 | 172 | 30 | 49 | 32 | 65.3061 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.4888 | 94.9264 | 98.1034 | 64.0867 | 580 | 31 | 569 | 11 | 9 | 81.8182 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8814 | 99.7630 | 100.0000 | 64.0862 | 1684 | 4 | 1684 | 0 | 0 | ||
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5426 | 98.1027 | 98.9865 | 64.0849 | 1758 | 34 | 1758 | 18 | 14 | 77.7778 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.3219 | 95.4262 | 99.2945 | 64.0832 | 17004 | 815 | 17030 | 121 | 44 | 36.3636 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7097 | 96.3304 | 99.1289 | 64.0826 | 5119 | 195 | 5121 | 45 | 38 | 84.4444 | |
| ndellapenna-hhga | INDEL | D16_PLUS | * | * | 85.7572 | 80.4393 | 91.8280 | 64.0820 | 5457 | 1327 | 5551 | 494 | 372 | 75.3036 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 72.1992 | 56.8627 | 98.8636 | 64.0816 | 87 | 66 | 87 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2465 | 99.7835 | 98.7152 | 64.0769 | 461 | 1 | 461 | 6 | 6 | 100.0000 | |