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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11651-11700 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.4402 | 98.1388 | 92.8860 | 44.9639 | 6591 | 125 | 6659 | 510 | 472 | 92.5490 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 59.5793 | 42.8121 | 97.9353 | 47.2358 | 1629 | 2176 | 3178 | 67 | 62 | 92.5373 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4824 | 95.5531 | 99.4912 | 43.7067 | 13172 | 613 | 13100 | 67 | 62 | 92.5373 | |
| jlack-gatk | INDEL | * | HG002complexvar | hetalt | 94.5505 | 91.1868 | 98.1719 | 68.2876 | 3373 | 326 | 3598 | 67 | 62 | 92.5373 | |
| jlack-gatk | INDEL | * | HG002compoundhet | hetalt | 94.2807 | 89.4162 | 99.7049 | 50.9823 | 22515 | 2665 | 22637 | 67 | 62 | 92.5373 | |
| jpowers-varprowl | INDEL | I6_15 | HG002compoundhet | homalt | 11.4804 | 61.2903 | 6.3333 | 53.7037 | 19 | 12 | 19 | 281 | 260 | 92.5267 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 53.7340 | 37.1777 | 96.8750 | 57.0119 | 2192 | 3704 | 3317 | 107 | 99 | 92.5234 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 53.7340 | 37.1777 | 96.8750 | 57.0119 | 2192 | 3704 | 3317 | 107 | 99 | 92.5234 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 21.5835 | 18.1202 | 26.6833 | 26.4895 | 214 | 967 | 214 | 588 | 544 | 92.5170 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 50.9329 | 44.5458 | 59.4580 | 50.1890 | 1074 | 1337 | 1097 | 748 | 692 | 92.5134 | |
| mlin-fermikit | SNP | * | map_l250_m2_e0 | homalt | 52.9680 | 43.1869 | 68.4770 | 75.7965 | 1160 | 1526 | 1160 | 534 | 494 | 92.5094 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m0_e0 | homalt | 70.9924 | 72.0930 | 69.9248 | 75.4613 | 186 | 72 | 186 | 80 | 74 | 92.5000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.8472 | 76.6302 | 97.5845 | 55.5436 | 1610 | 491 | 1616 | 40 | 37 | 92.5000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 87.8646 | 98.7097 | 79.1667 | 84.0000 | 153 | 2 | 152 | 40 | 37 | 92.5000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 88.7545 | 83.2610 | 95.0242 | 30.5643 | 1343 | 270 | 6092 | 319 | 295 | 92.4765 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0945 | 98.9337 | 99.2558 | 72.1244 | 63744 | 687 | 63755 | 478 | 442 | 92.4686 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 61.1743 | 60.6771 | 61.6798 | 85.0530 | 233 | 151 | 235 | 146 | 135 | 92.4658 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 70.6236 | 94.0299 | 56.5476 | 85.1656 | 189 | 12 | 190 | 146 | 135 | 92.4658 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 90.4279 | 98.3630 | 83.6775 | 77.1548 | 2103 | 35 | 2107 | 411 | 380 | 92.4574 | |
| gduggal-snapvard | INDEL | D1_5 | HG002compoundhet | homalt | 75.8563 | 69.7595 | 83.1210 | 54.7550 | 203 | 88 | 261 | 53 | 49 | 92.4528 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 41.8443 | 31.2155 | 63.4483 | 59.6100 | 113 | 249 | 92 | 53 | 49 | 92.4528 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.3646 | 97.7617 | 98.9750 | 61.5381 | 30705 | 703 | 30705 | 318 | 294 | 92.4528 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.3646 | 97.7617 | 98.9750 | 61.5381 | 30705 | 703 | 30705 | 318 | 294 | 92.4528 | |
| mlin-fermikit | SNP | * | map_l125_m0_e0 | homalt | 56.5095 | 47.8546 | 68.9863 | 54.6729 | 3212 | 3500 | 3212 | 1444 | 1335 | 92.4515 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 89.6104 | 96.3123 | 83.7805 | 65.9807 | 29356 | 1124 | 30414 | 5888 | 5443 | 92.4423 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 89.6104 | 96.3123 | 83.7805 | 65.9807 | 29356 | 1124 | 30414 | 5888 | 5443 | 92.4423 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 40.3286 | 26.9258 | 80.2982 | 58.7796 | 755 | 2049 | 754 | 185 | 171 | 92.4324 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 51.5543 | 84.6990 | 37.0542 | 41.5748 | 1871 | 338 | 2161 | 3671 | 3393 | 92.4271 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.6206 | 97.5940 | 88.1295 | 86.9820 | 649 | 16 | 490 | 66 | 61 | 92.4242 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9006 | 91.1550 | 92.6585 | 71.5146 | 876 | 85 | 833 | 66 | 61 | 92.4242 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.8650 | 94.2920 | 97.4914 | 60.1243 | 2577 | 156 | 2565 | 66 | 61 | 92.4242 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.8990 | 97.6739 | 98.1251 | 62.1451 | 42327 | 1008 | 42130 | 805 | 744 | 92.4224 | |
| mlin-fermikit | SNP | * | map_l250_m2_e1 | homalt | 53.1320 | 43.3775 | 68.5465 | 76.1343 | 1179 | 1539 | 1179 | 541 | 500 | 92.4214 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2937 | 95.6572 | 98.9872 | 51.0230 | 36256 | 1646 | 36066 | 369 | 341 | 92.4119 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.1325 | 94.2362 | 84.5533 | 48.1916 | 3646 | 223 | 3246 | 593 | 548 | 92.4115 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.7222 | 98.4748 | 98.9709 | 68.2697 | 21565 | 334 | 21542 | 224 | 207 | 92.4107 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3981 | 99.0572 | 99.7414 | 71.0854 | 30471 | 290 | 30469 | 79 | 73 | 92.4051 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.9616 | 93.1237 | 98.9779 | 28.5807 | 7611 | 562 | 7650 | 79 | 73 | 92.4051 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5384 | 98.0960 | 98.9848 | 61.0949 | 30810 | 598 | 30810 | 316 | 292 | 92.4051 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5384 | 98.0960 | 98.9848 | 61.0949 | 30810 | 598 | 30810 | 316 | 292 | 92.4051 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7294 | 94.6488 | 98.9035 | 60.3171 | 14592 | 825 | 15424 | 171 | 158 | 92.3977 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3740 | 96.2418 | 98.5331 | 64.4408 | 62895 | 2456 | 62671 | 933 | 862 | 92.3901 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3740 | 96.2418 | 98.5331 | 64.4408 | 62895 | 2456 | 62671 | 933 | 862 | 92.3901 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.2409 | 95.9430 | 86.9781 | 77.5847 | 875 | 37 | 875 | 131 | 121 | 92.3664 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.1397 | 99.2867 | 95.0836 | 54.6384 | 2784 | 20 | 2785 | 144 | 133 | 92.3611 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2278 | 99.3890 | 99.0672 | 63.8278 | 18055 | 111 | 18055 | 170 | 157 | 92.3529 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2278 | 99.3890 | 99.0672 | 63.8278 | 18055 | 111 | 18055 | 170 | 157 | 92.3529 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2283 | 95.5860 | 98.9279 | 54.0066 | 16891 | 780 | 16887 | 183 | 169 | 92.3497 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2283 | 95.5860 | 98.9279 | 54.0066 | 16891 | 780 | 16887 | 183 | 169 | 92.3497 | |
| bgallagher-sentieon | INDEL | I6_15 | * | * | 97.2604 | 96.4589 | 98.0753 | 52.5522 | 23944 | 879 | 23949 | 470 | 434 | 92.3404 | |