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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74451-74500 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7417 | 84.0451 | 91.7784 | 50.9056 | 14976 | 2843 | 21221 | 1901 | 1763 | 92.7407 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 40.8005 | 87.2340 | 26.6272 | 32.1285 | 41 | 6 | 45 | 124 | 115 | 92.7419 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.5955 | 95.4157 | 97.8049 | 67.5959 | 5578 | 268 | 5525 | 124 | 115 | 92.7419 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.5955 | 95.4157 | 97.8049 | 67.5959 | 5578 | 268 | 5525 | 124 | 115 | 92.7419 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 57.8173 | 89.4447 | 42.7138 | 55.6700 | 3254 | 384 | 3236 | 4340 | 4025 | 92.7419 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e0 | homalt | 60.3616 | 53.1472 | 69.8423 | 60.3244 | 2170 | 1913 | 2170 | 937 | 869 | 92.7428 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.6857 | 66.9578 | 87.0301 | 80.4555 | 460 | 227 | 463 | 69 | 64 | 92.7536 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002compoundhet | * | 61.7860 | 49.7651 | 81.4641 | 41.2623 | 1165 | 1176 | 1213 | 276 | 256 | 92.7536 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.5930 | 24.0897 | 61.3362 | 63.5277 | 1429 | 4503 | 1423 | 897 | 832 | 92.7536 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 59.8797 | 85.7519 | 46.0008 | 48.3317 | 7174 | 1192 | 7166 | 8412 | 7803 | 92.7603 | |
| egarrison-hhga | INDEL | D1_5 | * | het | 97.6225 | 99.3251 | 95.9773 | 54.9367 | 86983 | 591 | 87418 | 3664 | 3399 | 92.7675 | |
| rpoplin-dv42 | INDEL | I1_5 | * | homalt | 99.6318 | 99.4026 | 99.8620 | 52.4571 | 60067 | 361 | 60064 | 83 | 77 | 92.7711 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 50.1159 | 99.4924 | 33.4936 | 34.9322 | 196 | 1 | 209 | 415 | 385 | 92.7711 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3881 | 95.8010 | 99.0287 | 53.0662 | 16929 | 742 | 16924 | 166 | 154 | 92.7711 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3881 | 95.8010 | 99.0287 | 53.0662 | 16929 | 742 | 16924 | 166 | 154 | 92.7711 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | * | 97.5846 | 96.7748 | 98.4081 | 58.8477 | 5131 | 171 | 5131 | 83 | 77 | 92.7711 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 93.1476 | 88.3677 | 98.4741 | 26.6190 | 6085 | 801 | 6260 | 97 | 90 | 92.7835 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 36.1705 | 94.9861 | 22.3385 | 27.7457 | 341 | 18 | 363 | 1262 | 1171 | 92.7892 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9489 | 97.2165 | 98.6923 | 51.4779 | 36847 | 1055 | 36679 | 486 | 451 | 92.7984 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.6598 | 95.2648 | 96.0580 | 63.2518 | 3058 | 152 | 3046 | 125 | 116 | 92.8000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 91.7362 | 85.8358 | 98.5078 | 31.2346 | 7975 | 1316 | 8252 | 125 | 116 | 92.8000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 91.7362 | 85.8358 | 98.5078 | 31.2346 | 7975 | 1316 | 8252 | 125 | 116 | 92.8000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 52.9384 | 36.4654 | 96.5577 | 59.1585 | 3388 | 5903 | 3899 | 139 | 129 | 92.8058 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 52.9384 | 36.4654 | 96.5577 | 59.1585 | 3388 | 5903 | 3899 | 139 | 129 | 92.8058 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1121 | 98.7732 | 95.5059 | 60.7561 | 8293 | 103 | 8288 | 390 | 362 | 92.8205 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 61.9472 | 80.3853 | 50.3893 | 46.9303 | 459 | 112 | 453 | 446 | 414 | 92.8251 | |
| hfeng-pmm1 | INDEL | I6_15 | * | * | 97.8503 | 96.8134 | 98.9096 | 50.1395 | 24032 | 791 | 24037 | 265 | 246 | 92.8302 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 51.0479 | 89.1961 | 35.7556 | 37.7138 | 1742 | 211 | 1732 | 3112 | 2889 | 92.8342 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 36.4192 | 29.7932 | 46.8354 | 63.9946 | 634 | 1494 | 629 | 714 | 663 | 92.8571 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 50.4202 | 43.4783 | 60.0000 | 40.6780 | 20 | 26 | 21 | 14 | 13 | 92.8571 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.1753 | 97.7901 | 88.9764 | 85.5927 | 354 | 8 | 226 | 28 | 26 | 92.8571 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9204 | 99.9646 | 99.8762 | 56.3829 | 11292 | 4 | 11292 | 14 | 13 | 92.8571 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.7712 | 99.6205 | 94.0803 | 83.0466 | 525 | 2 | 445 | 28 | 26 | 92.8571 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.8763 | 98.9362 | 93.0000 | 65.6947 | 186 | 2 | 186 | 14 | 13 | 92.8571 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 88.3435 | 79.5079 | 99.3884 | 37.9338 | 2165 | 558 | 2275 | 14 | 13 | 92.8571 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.1440 | 99.4681 | 93.0348 | 67.3701 | 187 | 1 | 187 | 14 | 13 | 92.8571 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1256 | 89.5940 | 96.9471 | 61.4582 | 5450 | 633 | 5335 | 168 | 156 | 92.8571 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5999 | 99.7890 | 99.4115 | 47.4486 | 2365 | 5 | 2365 | 14 | 13 | 92.8571 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.7059 | 100.0000 | 81.3333 | 90.5779 | 61 | 0 | 61 | 14 | 13 | 92.8571 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.5965 | 99.6454 | 97.5694 | 72.5584 | 562 | 2 | 562 | 14 | 13 | 92.8571 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8564 | 99.9306 | 55.5702 | 20170 | 29 | 20170 | 14 | 13 | 92.8571 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m1_e0 | het | 91.9902 | 92.8571 | 91.1392 | 82.1469 | 117 | 9 | 144 | 14 | 13 | 92.8571 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e0 | het | 91.8595 | 92.3664 | 91.3580 | 82.6367 | 121 | 10 | 148 | 14 | 13 | 92.8571 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | het | 91.2869 | 91.1111 | 91.4634 | 82.8452 | 123 | 12 | 150 | 14 | 13 | 92.8571 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | hetalt | 99.6433 | 99.5169 | 99.7701 | 22.0458 | 206 | 1 | 6075 | 14 | 13 | 92.8571 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.4019 | 71.9604 | 99.1696 | 43.2419 | 3344 | 1303 | 3344 | 28 | 26 | 92.8571 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 91.1195 | 84.5528 | 98.7921 | 74.4432 | 1144 | 209 | 1145 | 14 | 13 | 92.8571 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.3820 | 99.2126 | 90.0000 | 53.0201 | 126 | 1 | 126 | 14 | 13 | 92.8571 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.9686 | 72.3099 | 97.3129 | 50.8954 | 504 | 193 | 507 | 14 | 13 | 92.8571 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.3660 | 78.4928 | 98.5011 | 39.0737 | 927 | 254 | 920 | 14 | 13 | 92.8571 | |