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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9851-9900 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.1710 | 86.1140 | 99.1445 | 49.6360 | 3293 | 531 | 3361 | 29 | 28 | 96.5517 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8277 | 100.0000 | 95.7478 | 73.3906 | 653 | 0 | 653 | 29 | 28 | 96.5517 | |
| jpowers-varprowl | INDEL | * | func_cds | * | 91.7808 | 90.3371 | 93.2715 | 40.6336 | 402 | 43 | 402 | 29 | 28 | 96.5517 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9281 | 99.3885 | 98.4721 | 71.1857 | 3738 | 23 | 3738 | 58 | 56 | 96.5517 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9281 | 99.3885 | 98.4721 | 71.1857 | 3738 | 23 | 3738 | 58 | 56 | 96.5517 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.2896 | 93.1726 | 99.6223 | 27.3304 | 7615 | 558 | 7650 | 29 | 28 | 96.5517 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3336 | 99.1212 | 95.6094 | 68.5201 | 3835 | 34 | 3789 | 174 | 168 | 96.5517 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5453 | 100.0000 | 91.4706 | 70.3833 | 311 | 0 | 311 | 29 | 28 | 96.5517 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1429 | 90.3366 | 98.2840 | 67.1270 | 1664 | 178 | 1661 | 29 | 28 | 96.5517 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.5655 | 87.6892 | 93.6369 | 59.5069 | 3419 | 480 | 3414 | 232 | 224 | 96.5517 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e0 | homalt | 74.8140 | 66.2900 | 85.8537 | 77.2601 | 352 | 179 | 352 | 58 | 56 | 96.5517 | |
| rpoplin-dv42 | INDEL | I16_PLUS | HG002compoundhet | homalt | 17.1429 | 100.0000 | 9.3750 | 81.1765 | 3 | 0 | 3 | 29 | 28 | 96.5517 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.0561 | 88.0597 | 98.6537 | 62.4935 | 2124 | 288 | 2125 | 29 | 28 | 96.5517 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 61.3118 | 56.4815 | 67.0455 | 85.0085 | 61 | 47 | 59 | 29 | 28 | 96.5517 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 73.0717 | 83.3333 | 65.0602 | 84.3396 | 55 | 11 | 54 | 29 | 28 | 96.5517 | |
| gduggal-bwafb | INDEL | * | HG002complexvar | hetalt | 85.9574 | 79.3998 | 93.6957 | 80.8679 | 2937 | 762 | 1293 | 87 | 84 | 96.5517 | |
| gduggal-bwafb | INDEL | I6_15 | HG002complexvar | * | 87.6466 | 81.2187 | 95.1793 | 49.2161 | 3892 | 900 | 4008 | 203 | 196 | 96.5517 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5453 | 100.0000 | 91.4706 | 70.3833 | 311 | 0 | 311 | 29 | 28 | 96.5517 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 93.9099 | 89.5234 | 98.7484 | 34.7140 | 2273 | 266 | 2288 | 29 | 28 | 96.5517 | |
| hfeng-pmm3 | INDEL | D1_5 | * | homalt | 99.8825 | 99.8835 | 99.8815 | 58.1721 | 48869 | 57 | 48874 | 58 | 56 | 96.5517 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5273 | 99.6634 | 99.3915 | 39.2247 | 4737 | 16 | 4737 | 29 | 28 | 96.5517 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6691 | 99.7378 | 99.6004 | 35.1764 | 7228 | 19 | 7228 | 29 | 28 | 96.5517 | |
| hfeng-pmm2 | INDEL | * | * | homalt | 99.6594 | 99.8043 | 99.5149 | 55.8756 | 124927 | 245 | 124935 | 609 | 588 | 96.5517 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.0172 | 94.5909 | 99.5711 | 30.5429 | 13273 | 759 | 13466 | 58 | 56 | 96.5517 | |
| hfeng-pmm3 | INDEL | * | * | homalt | 99.7023 | 99.7971 | 99.6077 | 55.0410 | 124918 | 254 | 124928 | 492 | 475 | 96.5447 | |
| mlin-fermikit | INDEL | * | * | het | 96.2161 | 96.8146 | 95.6251 | 53.1659 | 187949 | 6184 | 187516 | 8579 | 8282 | 96.5381 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.2994 | 98.2297 | 92.5388 | 63.5670 | 8212 | 148 | 8223 | 663 | 640 | 96.5309 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.2994 | 98.2297 | 92.5388 | 63.5670 | 8212 | 148 | 8223 | 663 | 640 | 96.5309 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 65.2028 | 60.0760 | 71.2862 | 53.7688 | 790 | 525 | 787 | 317 | 306 | 96.5300 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.3555 | 95.9010 | 54.3198 | 55.3205 | 15114 | 646 | 15165 | 12753 | 12310 | 96.5263 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 62.9779 | 59.7881 | 66.5273 | 42.2033 | 14672 | 9868 | 14642 | 7367 | 7111 | 96.5250 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 55.8140 | 72.1805 | 45.4976 | 78.8365 | 96 | 37 | 96 | 115 | 111 | 96.5217 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 81.5434 | 97.2452 | 70.2073 | 58.5180 | 10802 | 306 | 10840 | 4600 | 4440 | 96.5217 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.3424 | 98.3065 | 92.5518 | 69.4000 | 5747 | 99 | 5716 | 460 | 444 | 96.5217 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.3424 | 98.3065 | 92.5518 | 69.4000 | 5747 | 99 | 5716 | 460 | 444 | 96.5217 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 60.5449 | 60.3604 | 60.7306 | 57.8846 | 134 | 88 | 133 | 86 | 83 | 96.5116 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | * | 97.9831 | 97.6047 | 98.3644 | 58.6538 | 5175 | 127 | 5172 | 86 | 83 | 96.5116 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.1495 | 99.5808 | 98.7219 | 57.2055 | 6651 | 28 | 6643 | 86 | 83 | 96.5116 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3847 | 99.1729 | 95.6599 | 68.7214 | 3837 | 32 | 3791 | 172 | 166 | 96.5116 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.6307 | 91.1655 | 96.2330 | 58.6113 | 2198 | 213 | 2197 | 86 | 83 | 96.5116 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 75.1496 | 77.5758 | 72.8707 | 49.6025 | 256 | 74 | 231 | 86 | 83 | 96.5116 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.0969 | 99.4760 | 98.7206 | 57.2310 | 6644 | 35 | 6636 | 86 | 83 | 96.5116 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2034 | 96.5701 | 97.8450 | 55.8440 | 36602 | 1300 | 36414 | 802 | 774 | 96.5087 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 67.8590 | 93.2584 | 53.3333 | 46.3895 | 249 | 18 | 392 | 343 | 331 | 96.5015 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 60.8792 | 59.0648 | 62.8085 | 52.6630 | 21613 | 14979 | 21581 | 12779 | 12331 | 96.4942 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4981 | 97.9421 | 99.0604 | 41.3577 | 24035 | 505 | 24037 | 228 | 220 | 96.4912 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | homalt | 74.4541 | 65.8301 | 85.6784 | 74.7141 | 341 | 177 | 341 | 57 | 55 | 96.4912 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.4391 | 88.9344 | 87.9493 | 79.5592 | 434 | 54 | 416 | 57 | 55 | 96.4912 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.5882 | 99.5406 | 91.9378 | 72.4044 | 650 | 3 | 650 | 57 | 55 | 96.4912 | |