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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13851-13900 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.9399 | 93.0416 | 99.0245 | 57.0442 | 3784 | 283 | 3756 | 37 | 32 | 86.4865 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 69.0793 | 87.2712 | 57.1635 | 56.5737 | 2146 | 313 | 6735 | 5047 | 4364 | 86.4672 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 39.9604 | 56.2674 | 30.9816 | 39.7969 | 202 | 157 | 202 | 450 | 389 | 86.4444 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9501 | 99.4036 | 98.5008 | 62.9678 | 15666 | 94 | 15506 | 236 | 204 | 86.4407 | |
| ckim-gatk | INDEL | D6_15 | * | * | 98.2230 | 97.9802 | 98.4670 | 55.8597 | 25565 | 527 | 25564 | 398 | 344 | 86.4322 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.4592 | 94.7518 | 94.1685 | 74.3063 | 1336 | 74 | 1308 | 81 | 70 | 86.4198 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.8760 | 89.1186 | 99.1699 | 39.2139 | 3448 | 421 | 9677 | 81 | 70 | 86.4198 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.9148 | 78.4053 | 97.4964 | 52.0513 | 4012 | 1105 | 4011 | 103 | 89 | 86.4078 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.7656 | 99.5841 | 96.0122 | 62.9104 | 20115 | 84 | 20152 | 837 | 723 | 86.3799 | |
| gduggal-bwafb | INDEL | * | * | * | 96.9474 | 95.5004 | 98.4390 | 56.3888 | 329039 | 15503 | 342492 | 5431 | 4691 | 86.3745 | |
| mlin-fermikit | INDEL | D1_5 | segdup | * | 97.1654 | 96.3735 | 97.9705 | 92.4302 | 1063 | 40 | 1062 | 22 | 19 | 86.3636 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1729 | 95.2004 | 99.2289 | 61.5550 | 5653 | 285 | 5662 | 44 | 38 | 86.3636 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 88.1323 | 79.3116 | 99.1606 | 35.6652 | 11129 | 2903 | 2599 | 22 | 19 | 86.3636 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 87.8389 | 85.4251 | 90.3930 | 78.7175 | 211 | 36 | 207 | 22 | 19 | 86.3636 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.3820 | 92.0779 | 98.9320 | 57.7089 | 2034 | 175 | 2038 | 22 | 19 | 86.3636 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m1_e0 | * | 59.1682 | 52.8736 | 67.1642 | 96.2232 | 46 | 41 | 45 | 22 | 19 | 86.3636 | |
| 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 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m2_e0 | * | 59.8250 | 53.3333 | 68.1159 | 96.2743 | 48 | 42 | 47 | 22 | 19 | 86.3636 | |
| 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 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 70.4679 | 70.6667 | 70.2703 | 56.2130 | 53 | 22 | 52 | 22 | 19 | 86.3636 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 51.0638 | 92.3077 | 35.2941 | 68.5185 | 12 | 1 | 12 | 22 | 19 | 86.3636 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.3472 | 95.8165 | 96.8839 | 75.3835 | 710 | 31 | 684 | 22 | 19 | 86.3636 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2746 | 95.6815 | 96.8750 | 75.2809 | 709 | 32 | 682 | 22 | 19 | 86.3636 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.4154 | 95.9514 | 96.8839 | 75.2281 | 711 | 30 | 684 | 22 | 19 | 86.3636 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 47.2088 | 43.9090 | 51.0447 | 54.2294 | 4866 | 6216 | 4886 | 4686 | 4047 | 86.3636 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e0 | homalt | 49.9618 | 35.4839 | 84.3972 | 87.4219 | 121 | 220 | 119 | 22 | 19 | 86.3636 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m2_e1 | homalt | 50.0650 | 35.5685 | 84.5070 | 87.6843 | 122 | 221 | 120 | 22 | 19 | 86.3636 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4844 | 97.4321 | 99.5596 | 48.5952 | 1328 | 35 | 4973 | 22 | 19 | 86.3636 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | homalt | 99.4476 | 99.2253 | 99.6709 | 64.2590 | 6660 | 52 | 6663 | 22 | 19 | 86.3636 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1733 | 95.1598 | 99.2739 | 61.8292 | 6016 | 306 | 6016 | 44 | 38 | 86.3636 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1733 | 95.1598 | 99.2739 | 61.8292 | 6016 | 306 | 6016 | 44 | 38 | 86.3636 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0502 | 96.8343 | 99.2971 | 55.9217 | 15539 | 508 | 15540 | 110 | 95 | 86.3636 | |
| anovak-vg | SNP | * | map_l100_m2_e0 | homalt | 91.7943 | 85.3141 | 99.3397 | 61.4498 | 23481 | 4042 | 23170 | 154 | 133 | 86.3636 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1834 | 97.9681 | 98.3997 | 62.7279 | 14320 | 297 | 13958 | 227 | 196 | 86.3436 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 92.9382 | 92.2964 | 93.5890 | 71.7186 | 1258 | 105 | 1708 | 117 | 101 | 86.3248 | |
| egarrison-hhga | SNP | * | HG002compoundhet | homalt | 99.2639 | 99.4064 | 99.1218 | 35.3785 | 10718 | 64 | 10722 | 95 | 82 | 86.3158 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.6966 | 94.8227 | 88.7701 | 73.3903 | 1337 | 73 | 1328 | 168 | 145 | 86.3095 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 61.1245 | 61.5551 | 60.6998 | 48.1943 | 13696 | 8554 | 19966 | 12927 | 11157 | 86.3077 | |
| dgrover-gatk | SNP | * | * | homalt | 99.9839 | 99.9740 | 99.9938 | 17.2643 | 1179854 | 307 | 1179830 | 73 | 63 | 86.3014 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002compoundhet | * | 76.7851 | 64.4424 | 94.9759 | 53.5783 | 1381 | 762 | 1380 | 73 | 63 | 86.3014 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| ciseli-custom | INDEL | I1_5 | * | * | 87.1708 | 85.4583 | 88.9534 | 56.1825 | 128754 | 21909 | 128479 | 15955 | 13768 | 86.2927 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m1_e0 | het | 62.5043 | 64.2140 | 60.8833 | 91.5127 | 192 | 107 | 193 | 124 | 107 | 86.2903 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.5759 | 89.6241 | 78.2925 | 40.0872 | 1192 | 138 | 1183 | 328 | 283 | 86.2805 | |
| asubramanian-gatk | INDEL | D6_15 | * | het | 98.3985 | 98.5594 | 98.2382 | 63.4201 | 11425 | 167 | 11375 | 204 | 176 | 86.2745 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 64.5786 | 95.6522 | 48.7437 | 63.6197 | 22 | 1 | 97 | 102 | 88 | 86.2745 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.1443 | 94.3879 | 97.9673 | 65.1092 | 2506 | 149 | 2458 | 51 | 44 | 86.2745 | |