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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
44801-44850 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 78.0231 | 64.9737 | 97.6316 | 49.3333 | 371 | 200 | 371 | 9 | 8 | 88.8889 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 78.0254 | 68.0540 | 91.4205 | 35.5394 | 4840 | 2272 | 650 | 61 | 60 | 98.3607 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.0258 | 97.6378 | 64.9746 | 77.1991 | 124 | 3 | 128 | 69 | 47 | 68.1159 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 78.0360 | 99.3263 | 64.2617 | 73.0595 | 1327 | 9 | 1336 | 743 | 6 | 0.8075 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 78.0369 | 75.9494 | 80.2425 | 77.9111 | 4620 | 1463 | 4699 | 1157 | 1067 | 92.2213 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 78.0403 | 92.7260 | 67.3704 | 39.0451 | 9650 | 757 | 18923 | 9165 | 8275 | 90.2891 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0432 | 83.2653 | 73.4375 | 79.0713 | 408 | 82 | 235 | 85 | 83 | 97.6471 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | * | 78.0470 | 64.2498 | 99.3903 | 82.5096 | 31794 | 17691 | 31789 | 195 | 15 | 7.6923 | |
| ckim-isaac | INDEL | I16_PLUS | segdup | het | 78.0488 | 66.6667 | 94.1176 | 92.7039 | 16 | 8 | 16 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 78.0488 | 64.0000 | 100.0000 | 56.6667 | 16 | 9 | 13 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 78.0488 | 64.0000 | 100.0000 | 72.8814 | 16 | 9 | 16 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 78.0488 | 64.0000 | 100.0000 | 50.0000 | 16 | 9 | 13 | 0 | 0 | ||
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.0488 | 100.0000 | 64.0000 | 97.3461 | 16 | 0 | 16 | 9 | 0 | 0.0000 | |
| anovak-vg | SNP | * | HG002compoundhet | het | 78.0560 | 77.3875 | 78.7362 | 46.6128 | 10972 | 3206 | 12323 | 3328 | 2553 | 76.7127 | |
| anovak-vg | SNP | * | HG002compoundhet | * | 78.0620 | 76.6207 | 79.5586 | 43.6697 | 19785 | 6037 | 20297 | 5215 | 3696 | 70.8725 | |
| anovak-vg | SNP | ti | map_l100_m0_e0 | het | 78.0640 | 88.2071 | 70.0131 | 76.8266 | 12334 | 1649 | 12260 | 5251 | 1367 | 26.0331 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 78.0641 | 95.8333 | 65.8537 | 76.1628 | 23 | 1 | 27 | 14 | 14 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0651 | 92.4490 | 67.5545 | 80.7459 | 453 | 37 | 279 | 134 | 129 | 96.2687 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0662 | 93.4911 | 67.0103 | 81.9367 | 158 | 11 | 65 | 32 | 32 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.0761 | 71.5124 | 85.9666 | 51.3057 | 7925 | 3157 | 8031 | 1311 | 1160 | 88.4821 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 78.0779 | 88.6152 | 69.7802 | 44.4557 | 1907 | 245 | 1905 | 825 | 723 | 87.6364 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0811 | 92.6531 | 67.4699 | 80.7692 | 454 | 36 | 280 | 135 | 130 | 96.2963 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m2_e0 | homalt | 78.0829 | 75.7576 | 80.5556 | 78.2477 | 25 | 8 | 58 | 14 | 14 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | segdup | * | 78.0848 | 75.0708 | 81.3508 | 96.7377 | 795 | 264 | 807 | 185 | 6 | 3.2432 | |
| ciseli-custom | SNP | * | map_l250_m0_e0 | homalt | 78.0848 | 77.2655 | 78.9216 | 92.3251 | 486 | 143 | 483 | 129 | 86 | 66.6667 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.0863 | 74.0741 | 82.5581 | 65.0407 | 60 | 21 | 71 | 15 | 14 | 93.3333 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.0896 | 75.1071 | 81.3187 | 71.3321 | 1578 | 523 | 1554 | 357 | 352 | 98.5994 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002complexvar | het | 78.0918 | 86.6165 | 71.0947 | 66.0117 | 576 | 89 | 578 | 235 | 228 | 97.0213 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.0920 | 69.5839 | 88.9706 | 48.6792 | 485 | 212 | 484 | 60 | 59 | 98.3333 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0922 | 83.0612 | 73.6842 | 78.8197 | 407 | 83 | 238 | 85 | 81 | 95.2941 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l125_m1_e0 | het | 78.0952 | 64.0625 | 100.0000 | 96.9675 | 41 | 23 | 41 | 0 | 0 | ||
| qzeng-custom | SNP | tv | map_l250_m2_e1 | * | 78.0956 | 67.4211 | 92.7860 | 95.3708 | 1966 | 950 | 1955 | 152 | 125 | 82.2368 | |
| gduggal-snapvard | SNP | tv | map_l250_m0_e0 | * | 78.0985 | 94.5098 | 66.5434 | 94.1611 | 723 | 42 | 720 | 362 | 4 | 1.1050 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 78.1011 | 67.8161 | 92.0635 | 99.9065 | 59 | 28 | 58 | 5 | 0 | 0.0000 | |
| gduggal-bwaplat | SNP | tv | map_l125_m1_e0 | het | 78.1031 | 64.4085 | 99.1939 | 89.8771 | 6522 | 3604 | 6522 | 53 | 13 | 24.5283 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 78.1075 | 64.7471 | 98.4152 | 46.2255 | 10816 | 5889 | 10060 | 162 | 132 | 81.4815 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 78.1075 | 64.7471 | 98.4152 | 46.2255 | 10816 | 5889 | 10060 | 162 | 132 | 81.4815 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 78.1089 | 82.6087 | 74.0741 | 77.3109 | 19 | 4 | 20 | 7 | 7 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 78.1102 | 88.8889 | 69.6629 | 87.0262 | 112 | 14 | 186 | 81 | 8 | 9.8765 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 78.1128 | 65.0730 | 97.6884 | 78.4680 | 3253 | 1746 | 3254 | 77 | 59 | 76.6234 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 78.1128 | 65.0730 | 97.6884 | 78.4680 | 3253 | 1746 | 3254 | 77 | 59 | 76.6234 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m2_e1 | * | 78.1152 | 64.4771 | 99.0704 | 94.2799 | 746 | 411 | 746 | 7 | 1 | 14.2857 | |
| ghariani-varprowl | SNP | tv | HG002compoundhet | het | 78.1241 | 90.1776 | 68.9129 | 69.5656 | 4214 | 459 | 4336 | 1956 | 10 | 0.5112 | |
| gduggal-bwavard | INDEL | C1_5 | * | * | 78.1282 | 80.0000 | 76.3420 | 92.2396 | 8 | 2 | 1607 | 498 | 106 | 21.2851 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 78.1296 | 65.4234 | 96.9610 | 81.1140 | 10191 | 5386 | 10178 | 319 | 94 | 29.4671 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.1322 | 87.6543 | 70.4762 | 77.5161 | 71 | 10 | 74 | 31 | 30 | 96.7742 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 78.1345 | 68.1818 | 91.4894 | 92.2056 | 45 | 21 | 43 | 4 | 3 | 75.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m1_e0 | het | 78.1362 | 98.1982 | 64.8810 | 95.9104 | 109 | 2 | 109 | 59 | 4 | 6.7797 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.1375 | 85.3261 | 72.0660 | 79.7424 | 942 | 162 | 1179 | 457 | 238 | 52.0788 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 78.1416 | 74.7118 | 81.9014 | 40.1032 | 3046 | 1031 | 3041 | 672 | 667 | 99.2560 | |