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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21901-21950 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | tv | * | homalt | 99.9869 | 99.9841 | 99.9897 | 20.7747 | 377063 | 60 | 377056 | 39 | 21 | 53.8462 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.5238 | 93.1587 | 98.0122 | 81.7675 | 640 | 47 | 641 | 13 | 7 | 53.8462 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.0630 | 95.6476 | 98.5210 | 73.1357 | 901 | 41 | 866 | 13 | 7 | 53.8462 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2201 | 98.6457 | 99.8013 | 56.9126 | 19593 | 269 | 19586 | 39 | 21 | 53.8462 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.4853 | 99.5058 | 99.4648 | 66.6987 | 4832 | 24 | 4832 | 26 | 14 | 53.8462 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.3939 | 98.9796 | 97.8151 | 89.1397 | 1746 | 18 | 1746 | 39 | 21 | 53.8462 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7867 | 94.2786 | 99.4318 | 62.0564 | 2274 | 138 | 2275 | 13 | 7 | 53.8462 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | het | 96.3171 | 94.3089 | 98.4127 | 66.5304 | 1044 | 63 | 806 | 13 | 7 | 53.8462 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0975 | 98.5381 | 99.6632 | 66.5047 | 3842 | 57 | 3847 | 13 | 7 | 53.8462 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 84.3287 | 99.4131 | 73.2189 | 85.2401 | 847 | 5 | 853 | 312 | 168 | 53.8462 | |
| jmaeng-gatk | INDEL | * | map_l100_m1_e0 | homalt | 98.8581 | 98.7775 | 98.9388 | 83.8582 | 1212 | 15 | 1212 | 13 | 7 | 53.8462 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9195 | 98.2099 | 99.6395 | 45.6518 | 3621 | 66 | 3593 | 13 | 7 | 53.8462 | |
| qzeng-custom | INDEL | I16_PLUS | HG002complexvar | homalt | 87.9947 | 95.1456 | 81.8436 | 65.5106 | 294 | 15 | 293 | 65 | 35 | 53.8462 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 77.9185 | 72.5490 | 84.1463 | 86.5132 | 37 | 14 | 69 | 13 | 7 | 53.8462 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2303 | 99.2299 | 99.2308 | 68.4878 | 1675 | 13 | 1677 | 13 | 7 | 53.8462 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.8628 | 99.8712 | 99.8543 | 55.6453 | 17828 | 23 | 17825 | 26 | 14 | 53.8462 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0693 | 99.0805 | 97.0787 | 69.6866 | 431 | 4 | 432 | 13 | 7 | 53.8462 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m2_e1 | * | 94.8905 | 94.5455 | 95.2381 | 86.0143 | 260 | 15 | 260 | 13 | 7 | 53.8462 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | het | 98.2624 | 96.9805 | 99.5786 | 37.2500 | 9218 | 287 | 9216 | 39 | 21 | 53.8462 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.3247 | 79.9043 | 96.2644 | 43.3225 | 334 | 84 | 335 | 13 | 7 | 53.8462 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.2767 | 96.0630 | 90.6475 | 74.0187 | 122 | 5 | 126 | 13 | 7 | 53.8462 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8920 | 97.5066 | 98.2804 | 67.0301 | 743 | 19 | 743 | 13 | 7 | 53.8462 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7625 | 97.5758 | 95.9627 | 75.9522 | 322 | 8 | 309 | 13 | 7 | 53.8462 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.3782 | 98.4839 | 98.2727 | 72.8894 | 21567 | 332 | 21563 | 379 | 204 | 53.8259 | |
| anovak-vg | INDEL | * | map_l150_m2_e1 | * | 72.7945 | 74.6352 | 71.0425 | 90.5099 | 1074 | 365 | 1104 | 450 | 242 | 53.7778 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 65.0184 | 70.8333 | 60.0858 | 84.4511 | 272 | 112 | 280 | 186 | 100 | 53.7634 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 82.2656 | 88.2213 | 77.0631 | 82.3781 | 1116 | 149 | 1270 | 378 | 203 | 53.7037 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 65.6529 | 54.9051 | 81.6327 | 49.3103 | 347 | 285 | 240 | 54 | 29 | 53.7037 | |
| gduggal-snapfb | SNP | ti | map_l150_m0_e0 | het | 94.2863 | 94.8597 | 93.7197 | 77.7514 | 4835 | 262 | 4835 | 324 | 174 | 53.7037 | |
| gduggal-snapfb | SNP | ti | map_siren | homalt | 99.1394 | 98.4334 | 99.8555 | 57.8682 | 37322 | 594 | 37322 | 54 | 29 | 53.7037 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 15.2225 | 9.4654 | 38.8554 | 56.6013 | 108 | 1033 | 129 | 203 | 109 | 53.6946 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 81.2482 | 70.2896 | 96.2549 | 70.8872 | 30460 | 12875 | 30456 | 1185 | 636 | 53.6709 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 77.4749 | 88.1419 | 69.1110 | 56.7739 | 5887 | 792 | 6258 | 2797 | 1501 | 53.6646 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 21.1538 | 92.0368 | 0 | 0 | 11 | 41 | 22 | 53.6585 | |
| ghariani-varprowl | INDEL | * | map_siren | * | 90.8910 | 92.7126 | 89.1397 | 90.4253 | 6870 | 540 | 6870 | 837 | 449 | 53.6440 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 86.4073 | 86.7056 | 86.1111 | 74.4351 | 1337 | 205 | 1364 | 220 | 118 | 53.6364 | |
| gduggal-snapplat | SNP | * | map_l125_m1_e0 | * | 93.8560 | 91.8106 | 95.9947 | 80.5503 | 41615 | 3712 | 41630 | 1737 | 931 | 53.5982 | |
| ckim-isaac | SNP | ti | * | * | 98.6272 | 97.3318 | 99.9576 | 14.8667 | 2029873 | 55645 | 2030218 | 862 | 462 | 53.5963 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.6925 | 98.3731 | 97.0213 | 73.9323 | 907 | 15 | 912 | 28 | 15 | 53.5714 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.3335 | 96.2182 | 96.4490 | 61.4990 | 1552 | 61 | 1521 | 56 | 30 | 53.5714 | |
| ghariani-varprowl | SNP | tv | map_l150_m1_e0 | homalt | 98.6612 | 98.0487 | 99.2815 | 73.6565 | 3869 | 77 | 3869 | 28 | 15 | 53.5714 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e0 | homalt | 98.6939 | 98.0896 | 99.3057 | 75.8431 | 4005 | 78 | 4005 | 28 | 15 | 53.5714 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e1 | homalt | 98.7101 | 98.1132 | 99.3144 | 75.8171 | 4056 | 78 | 4056 | 28 | 15 | 53.5714 | |
| qzeng-custom | INDEL | * | map_l250_m1_e0 | het | 77.2075 | 70.0000 | 86.0697 | 98.2587 | 133 | 57 | 173 | 28 | 15 | 53.5714 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7868 | 99.6845 | 99.8894 | 55.8752 | 25279 | 80 | 25282 | 28 | 15 | 53.5714 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 60.7128 | 46.4157 | 87.7382 | 45.3351 | 4390 | 5068 | 4236 | 592 | 317 | 53.5473 | |
| gduggal-snapvard | INDEL | I16_PLUS | HG002compoundhet | * | 0.9920 | 0.5133 | 14.7343 | 45.8824 | 11 | 2132 | 61 | 353 | 189 | 53.5411 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 67.7108 | 95.5224 | 52.4422 | 85.5605 | 192 | 9 | 204 | 185 | 99 | 53.5135 | |
| eyeh-varpipe | INDEL | * | map_l100_m0_e0 | het | 96.6024 | 96.1802 | 97.0283 | 84.1962 | 982 | 39 | 1404 | 43 | 23 | 53.4884 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e1 | * | 99.0741 | 98.3690 | 99.7895 | 74.1500 | 20385 | 338 | 20385 | 43 | 23 | 53.4884 | |