PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66301-66350 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.5904 | 95.2941 | 100.0000 | 52.8736 | 81 | 4 | 82 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | map_l150_m2_e1 | het | 97.5914 | 98.3766 | 96.8187 | 91.2287 | 909 | 15 | 913 | 30 | 4 | 13.3333 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.5920 | 97.2554 | 97.9309 | 57.6692 | 17186 | 485 | 17181 | 363 | 345 | 95.0413 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.5920 | 97.2554 | 97.9309 | 57.6692 | 17186 | 485 | 17181 | 363 | 345 | 95.0413 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5921 | 96.2043 | 99.0206 | 42.9077 | 9099 | 359 | 9099 | 90 | 85 | 94.4444 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e0 | * | 97.5922 | 96.4181 | 98.7952 | 83.8737 | 1319 | 49 | 1312 | 16 | 5 | 31.2500 | |
| dgrover-gatk | SNP | ti | map_l250_m0_e0 | het | 97.5923 | 97.6445 | 97.5401 | 94.6125 | 912 | 22 | 912 | 23 | 5 | 21.7391 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.5924 | 95.7627 | 99.4934 | 31.8370 | 904 | 40 | 982 | 5 | 5 | 100.0000 | |
| jlack-gatk | SNP | ti | map_siren | het | 97.5925 | 99.4357 | 95.8164 | 66.8895 | 62030 | 352 | 62021 | 2708 | 216 | 7.9764 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5926 | 96.9745 | 98.2186 | 79.0180 | 1218 | 38 | 1213 | 22 | 9 | 40.9091 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.5933 | 99.7860 | 95.4949 | 53.0674 | 2798 | 6 | 2798 | 132 | 131 | 99.2424 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.5934 | 95.8965 | 99.3515 | 52.0127 | 7081 | 303 | 7047 | 46 | 40 | 86.9565 | |
| jlack-gatk | SNP | ti | segdup | het | 97.5937 | 99.8088 | 95.4748 | 94.2828 | 12007 | 23 | 12005 | 569 | 5 | 0.8787 | |
| ckim-isaac | INDEL | * | func_cds | * | 97.5940 | 95.7303 | 99.5316 | 35.2049 | 426 | 19 | 425 | 2 | 1 | 50.0000 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5943 | 98.9387 | 96.2859 | 86.8966 | 4102 | 44 | 4122 | 159 | 29 | 18.2390 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5959 | 95.4653 | 99.8237 | 48.8181 | 5663 | 269 | 5663 | 10 | 8 | 80.0000 | |
| gduggal-bwafb | INDEL | I1_5 | segdup | het | 97.5959 | 96.6543 | 98.5560 | 94.9814 | 520 | 18 | 546 | 8 | 1 | 12.5000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5962 | 97.1292 | 98.0676 | 74.3176 | 203 | 6 | 203 | 4 | 3 | 75.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5965 | 95.7727 | 99.4912 | 45.8166 | 14160 | 625 | 14078 | 72 | 63 | 87.5000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5970 | 99.0328 | 96.2023 | 69.6244 | 4403 | 43 | 4357 | 172 | 164 | 95.3488 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5982 | 96.9186 | 98.2874 | 71.4134 | 1321 | 42 | 1320 | 23 | 20 | 86.9565 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.5990 | 96.0558 | 99.1926 | 35.3810 | 6478 | 266 | 6511 | 53 | 6 | 11.3208 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e0 | het | 97.5992 | 95.8799 | 99.3814 | 87.8462 | 4980 | 214 | 4980 | 31 | 14 | 45.1613 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e1 | * | 97.5993 | 97.1950 | 98.0069 | 76.8922 | 45878 | 1324 | 45878 | 933 | 285 | 30.5466 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5998 | 97.4834 | 97.7164 | 62.9555 | 54231 | 1400 | 53617 | 1253 | 392 | 31.2849 | |
| dgrover-gatk | INDEL | D6_15 | map_l100_m1_e0 | homalt | 97.6000 | 95.3125 | 100.0000 | 86.8534 | 61 | 3 | 61 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | map_l125_m1_e0 | het | 97.6000 | 95.3125 | 100.0000 | 89.3357 | 61 | 3 | 61 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D1_5 | map_l250_m2_e0 | * | 97.6000 | 99.4565 | 95.8115 | 95.6223 | 183 | 1 | 183 | 8 | 1 | 12.5000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6000 | 98.3871 | 96.8254 | 90.5405 | 122 | 2 | 122 | 4 | 2 | 50.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | map_l125_m1_e0 | het | 97.6000 | 95.3125 | 100.0000 | 86.7391 | 61 | 3 | 61 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D6_15 | map_l125_m2_e1 | * | 97.6000 | 95.3125 | 100.0000 | 86.1340 | 122 | 6 | 118 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | map_l125_m2_e1 | * | 97.6000 | 95.3125 | 100.0000 | 89.3263 | 122 | 6 | 122 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6000 | 96.8254 | 98.3871 | 66.3227 | 610 | 20 | 610 | 10 | 3 | 30.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m1_e0 | homalt | 97.6000 | 95.3125 | 100.0000 | 84.6348 | 61 | 3 | 61 | 0 | 0 | ||
| jpowers-varprowl | SNP | ti | segdup | het | 97.6001 | 98.8695 | 96.3629 | 92.1336 | 11894 | 136 | 11896 | 449 | 2 | 0.4454 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e0 | het | 97.6001 | 98.4547 | 96.7603 | 91.1986 | 892 | 14 | 896 | 30 | 4 | 13.3333 | |
| asubramanian-gatk | INDEL | D1_5 | map_siren | homalt | 97.6001 | 95.7192 | 99.5563 | 81.8284 | 1118 | 50 | 1122 | 5 | 3 | 60.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6012 | 95.7537 | 99.5214 | 52.8600 | 902 | 40 | 3535 | 17 | 15 | 88.2353 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6017 | 95.6643 | 99.6192 | 25.0742 | 6531 | 296 | 6540 | 25 | 24 | 96.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e1 | * | 97.6023 | 96.4158 | 98.8183 | 83.9763 | 1345 | 50 | 1338 | 16 | 5 | 31.2500 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6024 | 95.6055 | 99.6844 | 50.8784 | 2850 | 131 | 2843 | 9 | 6 | 66.6667 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e1 | het | 97.6025 | 95.8967 | 99.3701 | 87.9415 | 5048 | 216 | 5048 | 32 | 14 | 43.7500 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.6038 | 95.3198 | 100.0000 | 41.4681 | 611 | 30 | 614 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.6040 | 99.7536 | 95.5451 | 59.8944 | 5667 | 14 | 5662 | 264 | 263 | 99.6212 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6041 | 96.4619 | 98.7737 | 60.3970 | 12078 | 443 | 11921 | 148 | 125 | 84.4595 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | * | 97.6045 | 98.4962 | 96.7287 | 80.6842 | 31373 | 479 | 31373 | 1061 | 223 | 21.0179 | |
| egarrison-hhga | INDEL | * | map_l150_m1_e0 | * | 97.6046 | 97.3842 | 97.8261 | 98.6310 | 1303 | 35 | 1305 | 29 | 10 | 34.4828 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e0 | homalt | 97.6054 | 95.6014 | 99.6952 | 73.2059 | 7281 | 335 | 7195 | 22 | 18 | 81.8182 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.6055 | 95.7176 | 99.5693 | 26.7854 | 7823 | 350 | 7860 | 34 | 32 | 94.1176 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | het | 97.6068 | 97.2743 | 97.9417 | 88.6222 | 571 | 16 | 571 | 12 | 2 | 16.6667 | |