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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42001-42050 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 70.2899 | 54.1899 | 100.0000 | 31.7647 | 97 | 82 | 116 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 70.3015 | 64.9123 | 76.6667 | 98.8432 | 37 | 20 | 69 | 21 | 16 | 76.1905 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 70.3098 | 64.7887 | 76.8595 | 44.7489 | 92 | 50 | 93 | 28 | 26 | 92.8571 | |
| qzeng-custom | INDEL | D16_PLUS | map_l150_m2_e0 | het | 70.3125 | 93.7500 | 56.2500 | 96.6066 | 15 | 1 | 18 | 14 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 70.3297 | 54.2373 | 100.0000 | 61.4286 | 32 | 27 | 27 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3339 | 57.7444 | 89.9436 | 58.0772 | 384 | 281 | 957 | 107 | 104 | 97.1963 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 70.3371 | 62.5265 | 80.3777 | 56.0717 | 15344 | 9196 | 18388 | 4489 | 2592 | 57.7411 | |
| qzeng-custom | INDEL | I1_5 | map_l250_m2_e1 | * | 70.3456 | 56.1404 | 94.1748 | 98.0570 | 64 | 50 | 97 | 6 | 4 | 66.6667 | |
| anovak-vg | INDEL | D1_5 | map_l250_m0_e0 | het | 70.3504 | 81.8182 | 61.7021 | 97.9322 | 27 | 6 | 29 | 18 | 8 | 44.4444 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 70.3688 | 88.2855 | 58.4973 | 39.9312 | 6519 | 865 | 16856 | 11959 | 10481 | 87.6411 | |
| ckim-isaac | SNP | tv | map_l125_m1_e0 | * | 70.3696 | 54.3831 | 99.6682 | 71.7978 | 8710 | 7306 | 8712 | 29 | 9 | 31.0345 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m2_e0 | het | 70.3704 | 79.1667 | 63.3333 | 95.2978 | 38 | 10 | 38 | 22 | 19 | 86.3636 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | homalt | 70.3704 | 55.8824 | 95.0000 | 90.0990 | 19 | 15 | 19 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 70.3704 | 55.0000 | 97.6636 | 65.3160 | 209 | 171 | 209 | 5 | 5 | 100.0000 | |
| ciseli-custom | INDEL | D16_PLUS | segdup | * | 70.3704 | 65.5172 | 76.0000 | 92.2118 | 38 | 20 | 38 | 12 | 9 | 75.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3763 | 84.5113 | 60.2922 | 79.7798 | 562 | 103 | 454 | 299 | 278 | 92.9766 | |
| anovak-vg | SNP | * | map_l250_m0_e0 | het | 70.3786 | 80.8101 | 62.3323 | 96.0946 | 1217 | 289 | 1208 | 730 | 157 | 21.5068 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 70.3858 | 62.2960 | 80.8903 | 55.0300 | 6452 | 3905 | 7814 | 1846 | 1272 | 68.9057 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m2_e0 | homalt | 70.4000 | 54.5455 | 99.2481 | 84.0144 | 132 | 110 | 132 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 70.4000 | 64.7059 | 77.1930 | 96.8784 | 44 | 24 | 44 | 13 | 13 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e0 | * | 70.4052 | 59.2301 | 86.7779 | 80.7464 | 677 | 466 | 676 | 103 | 90 | 87.3786 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 70.4093 | 98.8620 | 54.6740 | 41.5519 | 695 | 8 | 696 | 577 | 569 | 98.6135 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 70.4099 | 93.3699 | 56.5131 | 85.6582 | 2211 | 157 | 2269 | 1746 | 174 | 9.9656 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 70.4102 | 58.6207 | 88.1356 | 99.8947 | 51 | 36 | 52 | 7 | 6 | 85.7143 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | hetalt | 70.4127 | 56.1733 | 94.3226 | 46.2179 | 687 | 536 | 731 | 44 | 30 | 68.1818 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 70.4225 | 54.3478 | 100.0000 | 51.0204 | 50 | 42 | 48 | 0 | 0 | ||
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 70.4260 | 57.0216 | 92.0694 | 94.2733 | 739 | 557 | 743 | 64 | 15 | 23.4375 | |
| gduggal-bwaplat | INDEL | * | map_l150_m1_e0 | * | 70.4293 | 54.5590 | 99.3197 | 95.9257 | 730 | 608 | 730 | 5 | 1 | 20.0000 | |
| gduggal-snapvard | INDEL | I6_15 | map_siren | het | 70.4297 | 84.6154 | 60.3175 | 79.3713 | 121 | 22 | 190 | 125 | 93 | 74.4000 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e1 | homalt | 70.4403 | 54.9020 | 98.2456 | 86.5882 | 112 | 92 | 112 | 2 | 0 | 0.0000 | |
| ciseli-custom | SNP | * | map_l150_m0_e0 | het | 70.4472 | 64.1940 | 78.0503 | 88.1313 | 5097 | 2843 | 5092 | 1432 | 47 | 3.2821 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 70.4495 | 67.4641 | 73.7113 | 75.8706 | 141 | 68 | 143 | 51 | 50 | 98.0392 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 70.4500 | 58.7209 | 88.0342 | 68.5484 | 101 | 71 | 103 | 14 | 5 | 35.7143 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 70.4512 | 54.9658 | 98.0843 | 26.8908 | 321 | 263 | 256 | 5 | 4 | 80.0000 | |
| ckim-isaac | SNP | ti | map_siren | hetalt | 70.4545 | 54.3860 | 100.0000 | 72.0721 | 31 | 26 | 31 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | het | 70.4610 | 54.8457 | 98.5073 | 60.6122 | 8653 | 7124 | 8645 | 131 | 2 | 1.5267 | |
| ciseli-custom | INDEL | * | map_l100_m1_e0 | * | 70.4613 | 65.9230 | 75.6705 | 87.5050 | 2364 | 1222 | 2370 | 762 | 504 | 66.1417 | |
| mlin-fermikit | SNP | tv | map_l100_m1_e0 | * | 70.4651 | 58.3772 | 88.8661 | 53.8051 | 14303 | 10198 | 14295 | 1791 | 1587 | 88.6097 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 70.4663 | 54.4000 | 100.0000 | 33.0000 | 68 | 57 | 67 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 70.4679 | 70.6667 | 70.2703 | 56.2130 | 53 | 22 | 52 | 22 | 19 | 86.3636 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 70.4680 | 75.1615 | 66.3261 | 61.3642 | 2908 | 961 | 3246 | 1648 | 1139 | 69.1141 | |
| ciseli-custom | SNP | * | HG002complexvar | hetalt | 70.4724 | 57.7419 | 90.4040 | 39.8176 | 179 | 131 | 179 | 19 | 9 | 47.3684 | |
| ciseli-custom | SNP | tv | HG002complexvar | hetalt | 70.4724 | 57.7419 | 90.4040 | 39.8176 | 179 | 131 | 179 | 19 | 9 | 47.3684 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m1_e0 | het | 70.4762 | 80.4348 | 62.7119 | 95.1199 | 37 | 9 | 37 | 22 | 19 | 86.3636 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 70.4762 | 90.2439 | 57.8125 | 92.6606 | 37 | 4 | 37 | 27 | 26 | 96.2963 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | * | 70.4819 | 54.7482 | 98.9056 | 88.7400 | 25580 | 21143 | 25577 | 283 | 6 | 2.1201 | |
| qzeng-custom | INDEL | I1_5 | map_l250_m1_e0 | * | 70.4907 | 56.6038 | 93.4066 | 98.0769 | 60 | 46 | 85 | 6 | 4 | 66.6667 | |
| ckim-isaac | INDEL | * | map_l250_m0_e0 | * | 70.4918 | 55.1282 | 97.7273 | 98.2952 | 43 | 35 | 43 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | * | * | * | 70.4960 | 69.7491 | 71.2591 | 54.1876 | 240315 | 104227 | 248606 | 100270 | 81436 | 81.2167 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m0_e0 | homalt | 70.5000 | 54.6512 | 99.2958 | 90.2204 | 141 | 117 | 141 | 1 | 0 | 0.0000 | |