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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42501-42550 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 100.0000 | 100.0000 | 100.0000 | 73.3533 | 89 | 0 | 89 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5115 | 99.3179 | 97.7181 | 73.3548 | 728 | 5 | 728 | 17 | 13 | 76.4706 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 61.8858 | 52.4538 | 75.4536 | 73.3552 | 8433 | 7644 | 8318 | 2706 | 2382 | 88.0266 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 61.8858 | 52.4538 | 75.4536 | 73.3552 | 8433 | 7644 | 8318 | 2706 | 2382 | 88.0266 | |
| eyeh-varpipe | INDEL | I6_15 | map_siren | * | 77.9593 | 69.5082 | 88.7500 | 73.3555 | 212 | 93 | 284 | 36 | 33 | 91.6667 | |
| gduggal-bwafb | SNP | tv | map_l150_m1_e0 | homalt | 99.4020 | 98.9863 | 99.8211 | 73.3556 | 3906 | 40 | 3906 | 7 | 5 | 71.4286 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.8058 | 95.8213 | 93.8116 | 73.3592 | 2316 | 101 | 2380 | 157 | 134 | 85.3503 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | homalt | 99.7799 | 99.6449 | 99.9152 | 73.3597 | 11785 | 42 | 11785 | 10 | 10 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9390 | 64.2764 | 95.8149 | 73.3607 | 5405 | 3004 | 5403 | 236 | 65 | 27.5424 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7831 | 96.8990 | 98.6834 | 73.3610 | 62433 | 1998 | 63262 | 844 | 717 | 84.9526 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.3161 | 87.6212 | 99.8027 | 73.3610 | 10122 | 1430 | 10118 | 20 | 17 | 85.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.3161 | 87.6212 | 99.8027 | 73.3610 | 10122 | 1430 | 10118 | 20 | 17 | 85.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.6937 | 88.1356 | 100.0000 | 73.3645 | 52 | 7 | 57 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 73.3668 | 53 | 0 | 53 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.7307 | 90.6437 | 97.0353 | 73.3675 | 1211 | 125 | 1211 | 37 | 3 | 8.1081 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0728 | 96.5190 | 99.6774 | 73.3677 | 305 | 11 | 309 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l125_m0_e0 | * | 98.7848 | 98.7671 | 98.8026 | 73.3692 | 19146 | 239 | 19143 | 232 | 9 | 3.8793 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 91.5223 | 87.0289 | 96.5049 | 73.3713 | 993 | 148 | 994 | 36 | 34 | 94.4444 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.5257 | 98.5798 | 98.4716 | 73.3734 | 21588 | 311 | 21584 | 335 | 163 | 48.6567 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.6645 | 92.0290 | 97.4555 | 73.3740 | 381 | 33 | 383 | 10 | 10 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.6645 | 92.0290 | 97.4555 | 73.3740 | 381 | 33 | 383 | 10 | 10 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2368 | 99.3209 | 97.1761 | 73.3746 | 1170 | 8 | 1170 | 34 | 34 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.1217 | 89.2704 | 99.5305 | 73.3750 | 208 | 25 | 212 | 1 | 1 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 69.5898 | 94.9602 | 54.9176 | 73.3767 | 2864 | 152 | 2898 | 2379 | 40 | 1.6814 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3117 | 97.1963 | 99.4531 | 73.3782 | 6240 | 180 | 6183 | 34 | 24 | 70.5882 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3117 | 97.1963 | 99.4531 | 73.3782 | 6240 | 180 | 6183 | 34 | 24 | 70.5882 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 40.1642 | 32.5939 | 52.3148 | 73.3785 | 720 | 1489 | 904 | 824 | 648 | 78.6408 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4581 | 99.2238 | 97.7041 | 73.3786 | 767 | 6 | 766 | 18 | 3 | 16.6667 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.2432 | 98.6409 | 90.2208 | 73.3792 | 11395 | 157 | 11440 | 1240 | 455 | 36.6935 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.2432 | 98.6409 | 90.2208 | 73.3792 | 11395 | 157 | 11440 | 1240 | 455 | 36.6935 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0261 | 98.9285 | 99.1239 | 73.3821 | 93437 | 1012 | 93346 | 825 | 733 | 88.8485 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e0 | homalt | 99.3810 | 99.0809 | 99.6830 | 73.3835 | 7546 | 70 | 7546 | 24 | 23 | 95.8333 | |
| astatham-gatk | INDEL | I16_PLUS | HG002compoundhet | homalt | 8.2192 | 100.0000 | 4.2857 | 73.3840 | 3 | 0 | 3 | 67 | 67 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | HG002compoundhet | homalt | 76.1097 | 96.5636 | 62.8062 | 73.3847 | 281 | 10 | 282 | 167 | 153 | 91.6168 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.6365 | 93.2331 | 98.1670 | 73.3875 | 124 | 9 | 482 | 9 | 6 | 66.6667 | |
| eyeh-varpipe | SNP | * | map_l125_m1_e0 | * | 98.7938 | 99.6867 | 97.9168 | 73.3897 | 45185 | 142 | 43853 | 933 | 38 | 4.0729 | |
| 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 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8277 | 100.0000 | 95.7478 | 73.3906 | 653 | 0 | 653 | 29 | 28 | 96.5517 | |
| rpoplin-dv42 | SNP | ti | map_l150_m1_e0 | * | 99.1152 | 98.8890 | 99.3424 | 73.3921 | 19493 | 219 | 19489 | 129 | 91 | 70.5426 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 71.7619 | 59.4118 | 90.5941 | 73.3930 | 909 | 621 | 915 | 95 | 49 | 51.5789 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 71.7619 | 59.4118 | 90.5941 | 73.3930 | 909 | 621 | 915 | 95 | 49 | 51.5789 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.1956 | 99.3209 | 97.0954 | 73.3937 | 1170 | 8 | 1170 | 35 | 35 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2353 | 99.2360 | 97.2546 | 73.3953 | 1169 | 9 | 1169 | 33 | 33 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.2811 | 94.3173 | 48.7547 | 73.3962 | 1278 | 77 | 1292 | 1358 | 1314 | 96.7599 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_siren | homalt | 99.5854 | 99.3399 | 99.8321 | 73.3974 | 1204 | 8 | 1189 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 41.5500 | 37.4241 | 46.6984 | 73.3990 | 2220 | 3712 | 2256 | 2575 | 311 | 12.0777 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4772 | 99.5662 | 99.3884 | 73.4002 | 918 | 4 | 975 | 6 | 4 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4214 | 99.0232 | 99.8227 | 73.4004 | 5069 | 50 | 5067 | 9 | 3 | 33.3333 | |