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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1201-1250 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.5884 | 91.6329 | 91.5440 | 60.2311 | 59883 | 5468 | 83381 | 7702 | 4718 | 61.2568 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.5884 | 91.6329 | 91.5440 | 60.2311 | 59883 | 5468 | 83381 | 7702 | 4718 | 61.2568 | |
| gduggal-bwafb | INDEL | I1_5 | * | homalt | 98.8253 | 98.7076 | 98.9433 | 52.6434 | 59647 | 781 | 59646 | 637 | 616 | 96.7033 | |
| qzeng-custom | SNP | * | map_l100_m2_e1 | * | 87.9879 | 79.6031 | 98.3471 | 77.0361 | 59493 | 15244 | 58784 | 988 | 790 | 79.9595 | |
| mlin-fermikit | INDEL | I1_5 | * | homalt | 98.3593 | 98.3799 | 98.3387 | 50.5872 | 59449 | 979 | 59371 | 1003 | 989 | 98.6042 | |
| jmaeng-gatk | SNP | * | map_l100_m1_e0 | * | 89.2166 | 81.7563 | 98.1753 | 78.5878 | 59194 | 13209 | 59183 | 1100 | 78 | 7.0909 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | * | 89.2398 | 81.7300 | 98.2693 | 78.3708 | 59175 | 13228 | 59164 | 1042 | 84 | 8.0614 | |
| ciseli-custom | SNP | * | map_l100_m1_e0 | * | 84.9995 | 81.6845 | 88.5950 | 70.0712 | 59142 | 13261 | 58960 | 7590 | 2012 | 26.5086 | |
| eyeh-varpipe | INDEL | I1_5 | * | homalt | 96.1261 | 97.6964 | 94.6055 | 51.8219 | 59036 | 1392 | 58978 | 3363 | 3305 | 98.2753 | |
| gduggal-snapfb | INDEL | I1_5 | * | homalt | 97.0924 | 97.6551 | 96.5362 | 55.2565 | 59011 | 1417 | 59057 | 2119 | 998 | 47.0977 | |
| asubramanian-gatk | SNP | * | map_siren | het | 78.4554 | 64.6317 | 99.8014 | 73.5808 | 58809 | 32182 | 58800 | 117 | 33 | 28.2051 | |
| qzeng-custom | SNP | * | map_l100_m2_e0 | * | 87.8989 | 79.4670 | 98.3325 | 77.0630 | 58777 | 15187 | 58084 | 985 | 789 | 80.1015 | |
| ckim-gatk | SNP | ti | map_siren | het | 96.2259 | 94.0079 | 98.5512 | 68.8261 | 58644 | 3738 | 58635 | 862 | 83 | 9.6288 | |
| jmaeng-gatk | SNP | ti | map_siren | het | 96.0962 | 93.8396 | 98.4641 | 69.3151 | 58539 | 3843 | 58530 | 913 | 76 | 8.3242 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 91.9743 | 90.3292 | 93.6805 | 71.4710 | 58200 | 6231 | 60215 | 4062 | 3944 | 97.0950 | |
| anovak-vg | INDEL | I1_5 | * | homalt | 66.3251 | 96.0879 | 50.6397 | 46.1343 | 58064 | 2364 | 59291 | 57793 | 55650 | 96.2919 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.6605 | 87.9344 | 89.3987 | 86.9048 | 57466 | 7885 | 57984 | 6876 | 6009 | 87.3909 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.6605 | 87.9344 | 89.3987 | 86.9048 | 57466 | 7885 | 57984 | 6876 | 6009 | 87.3909 | |
| gduggal-snapplat | INDEL | I1_5 | * | het | 74.5979 | 72.6661 | 76.6351 | 71.5717 | 57436 | 21605 | 58022 | 17690 | 370 | 2.0916 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.6086 | 87.8487 | 89.3817 | 86.9060 | 57410 | 7941 | 58141 | 6907 | 5920 | 85.7101 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.6086 | 87.8487 | 89.3817 | 86.9060 | 57410 | 7941 | 58141 | 6907 | 5920 | 85.7101 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | * | 87.6931 | 79.1127 | 98.3611 | 75.8509 | 57280 | 15123 | 56597 | 943 | 784 | 83.1389 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.1270 | 87.3774 | 95.2128 | 60.8815 | 57102 | 8249 | 63963 | 3216 | 2822 | 87.7488 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.1270 | 87.3774 | 95.2128 | 60.8815 | 57102 | 8249 | 63963 | 3216 | 2822 | 87.7488 | |
| anovak-vg | SNP | ti | map_siren | het | 85.3428 | 91.0279 | 80.3260 | 62.0963 | 56785 | 5597 | 56323 | 13795 | 3334 | 24.1682 | |
| ckim-isaac | INDEL | I1_5 | * | homalt | 96.6849 | 93.9498 | 99.5841 | 48.5995 | 56772 | 3656 | 56743 | 237 | 135 | 56.9620 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.1515 | 85.9467 | 88.3906 | 61.9558 | 56167 | 9184 | 55976 | 7352 | 7082 | 96.3275 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.1515 | 85.9467 | 88.3906 | 61.9558 | 56167 | 9184 | 55976 | 7352 | 7082 | 96.3275 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 89.8755 | 85.9451 | 94.1826 | 54.7512 | 56166 | 9185 | 55450 | 3425 | 2525 | 73.7226 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 89.8755 | 85.9451 | 94.1826 | 54.7512 | 56166 | 9185 | 55450 | 3425 | 2525 | 73.7226 | |
| gduggal-bwaplat | INDEL | I1_5 | * | homalt | 95.8146 | 92.1560 | 99.7758 | 57.5165 | 55688 | 4740 | 55641 | 125 | 99 | 79.2000 | |
| bgallagher-sentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6082 | 99.8778 | 99.3401 | 60.0690 | 55563 | 68 | 55552 | 369 | 30 | 8.1301 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6743 | 99.8742 | 99.4753 | 60.5238 | 55561 | 70 | 55550 | 293 | 27 | 9.2150 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8169 | 99.8526 | 99.7812 | 60.4097 | 55549 | 82 | 55631 | 122 | 39 | 31.9672 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8633 | 99.8472 | 99.8795 | 59.6020 | 55546 | 85 | 55530 | 67 | 38 | 56.7164 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5883 | 99.8077 | 99.3700 | 59.7371 | 55524 | 107 | 55520 | 352 | 27 | 7.6705 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1906 | 99.8023 | 98.5863 | 61.2684 | 55521 | 110 | 55510 | 796 | 46 | 5.7789 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5960 | 99.7232 | 99.4692 | 61.2535 | 55477 | 154 | 55466 | 296 | 29 | 9.7973 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4715 | 99.6836 | 99.2603 | 56.9862 | 55455 | 176 | 55556 | 414 | 57 | 13.7681 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6504 | 99.6818 | 99.6191 | 61.4842 | 55454 | 177 | 55443 | 212 | 23 | 10.8491 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5600 | 99.5848 | 99.5352 | 55.2358 | 55400 | 231 | 55463 | 259 | 19 | 7.3359 | |
| jpowers-varprowl | INDEL | I1_5 | * | homalt | 94.7762 | 91.6661 | 98.1046 | 39.3198 | 55392 | 5036 | 55332 | 1069 | 948 | 88.6810 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4820 | 99.5452 | 99.4189 | 54.5520 | 55378 | 253 | 55428 | 324 | 26 | 8.0247 | |
| eyeh-varpipe | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9963 | 99.5003 | 96.5372 | 58.7333 | 55353 | 278 | 52773 | 1893 | 213 | 11.2520 | |
| ghariani-varprowl | INDEL | I1_5 | * | homalt | 94.4302 | 91.5834 | 97.4597 | 39.6857 | 55342 | 5086 | 55284 | 1441 | 928 | 64.3997 | |
| qzeng-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0366 | 99.3834 | 98.6923 | 64.9734 | 55288 | 343 | 55243 | 732 | 105 | 14.3443 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4494 | 99.3637 | 99.5353 | 61.3550 | 55277 | 354 | 55266 | 258 | 27 | 10.4651 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.5852 | 99.2612 | 97.9184 | 64.7490 | 55220 | 411 | 55320 | 1176 | 260 | 22.1088 | |
| egarrison-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4287 | 99.1605 | 99.6983 | 57.8100 | 55164 | 467 | 55180 | 167 | 88 | 52.6946 | |
| hfeng-pmm2 | SNP | * | map_siren | homalt | 99.9075 | 99.9003 | 99.9148 | 53.4382 | 55101 | 55 | 55092 | 47 | 29 | 61.7021 | |