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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76601-76650 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 40.4624 | 33.1754 | 51.8519 | 75.6757 | 70 | 141 | 70 | 65 | 58 | 89.2308 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 45.1608 | 33.2536 | 70.3518 | 57.5693 | 139 | 279 | 140 | 59 | 58 | 98.3051 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3232 | 99.9179 | 98.7356 | 57.1091 | 6083 | 5 | 6091 | 78 | 58 | 74.3590 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4919 | 99.8244 | 97.1944 | 47.1301 | 3980 | 7 | 3984 | 115 | 58 | 50.4348 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 71.6485 | 93.5583 | 58.0534 | 81.2561 | 3965 | 273 | 4044 | 2922 | 58 | 1.9849 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2357 | 94.9731 | 99.6087 | 58.9389 | 14642 | 775 | 14763 | 58 | 58 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.6329 | 91.4439 | 80.5164 | 60.7373 | 342 | 32 | 343 | 83 | 58 | 69.8795 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 6.1644 | 3.6217 | 20.6897 | 83.3652 | 18 | 479 | 18 | 69 | 58 | 84.0580 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | * | 84.2159 | 73.9471 | 97.7967 | 84.1626 | 33518 | 11809 | 33512 | 755 | 58 | 7.6821 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2451 | 95.3502 | 99.2167 | 55.7798 | 8018 | 391 | 8107 | 64 | 58 | 90.6250 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.3535 | 744 | 8 | 744 | 59 | 58 | 98.3051 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | * | 98.2636 | 98.0635 | 98.4645 | 81.5621 | 11799 | 233 | 11799 | 184 | 58 | 31.5217 | |
| gduggal-bwafb | SNP | ti | HG002compoundhet | homalt | 99.3188 | 99.5943 | 99.0449 | 33.6250 | 7364 | 30 | 7363 | 71 | 58 | 81.6901 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4458 | 98.9378 | 97.9586 | 49.7551 | 10618 | 114 | 10653 | 222 | 58 | 26.1261 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 79.0138 | 67.0974 | 96.0770 | 80.1746 | 2596 | 1273 | 2596 | 106 | 58 | 54.7170 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2066 | 99.0882 | 99.3253 | 55.9755 | 11193 | 103 | 11189 | 76 | 58 | 76.3158 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m1_e0 | * | 68.5128 | 66.6667 | 70.4641 | 88.9767 | 172 | 86 | 167 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m1_e0 | het | 77.6064 | 99.2063 | 63.7306 | 90.0052 | 125 | 1 | 123 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e0 | * | 69.2012 | 67.4242 | 71.0744 | 89.5419 | 178 | 86 | 172 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e0 | het | 78.1594 | 99.2366 | 64.4670 | 90.5379 | 130 | 1 | 127 | 70 | 58 | 82.8571 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 81.7107 | 93.5185 | 72.5504 | 85.4033 | 1212 | 84 | 1007 | 381 | 58 | 15.2231 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 54.5918 | 37.8497 | 97.8929 | 39.6624 | 2584 | 4243 | 2834 | 61 | 58 | 95.0820 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.5998 | 99.7544 | 99.4458 | 51.6487 | 10153 | 25 | 10587 | 59 | 58 | 98.3051 | |
| eyeh-varpipe | INDEL | D6_15 | map_siren | * | 81.9080 | 78.5855 | 85.5238 | 80.3591 | 400 | 109 | 449 | 76 | 58 | 76.3158 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 94.6645 | 94.1361 | 95.1988 | 74.6771 | 899 | 56 | 1269 | 64 | 58 | 90.6250 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | * | 96.2856 | 96.1165 | 96.4552 | 81.4147 | 1287 | 52 | 2068 | 76 | 58 | 76.3158 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7339 | 100.0000 | 78.1481 | 67.6259 | 211 | 0 | 211 | 59 | 58 | 98.3051 | |
| jlack-gatk | SNP | * | map_l250_m2_e0 | het | 91.0733 | 98.0169 | 85.0484 | 94.0579 | 5091 | 103 | 5091 | 895 | 58 | 6.4805 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1334 | 94.7850 | 99.6011 | 59.6178 | 14613 | 804 | 14733 | 59 | 58 | 98.3051 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9883 | 95.6391 | 94.3463 | 80.9074 | 1272 | 58 | 1068 | 64 | 58 | 90.6250 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.9102 | 92.5212 | 99.5569 | 59.5559 | 14264 | 1153 | 14381 | 64 | 58 | 90.6250 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1951 | 98.6340 | 99.7626 | 72.6726 | 32782 | 454 | 32775 | 78 | 58 | 74.3590 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7580 | 99.7808 | 99.7353 | 72.9432 | 21851 | 48 | 21851 | 58 | 58 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | homalt | 90.7042 | 97.8723 | 84.5144 | 83.9037 | 322 | 7 | 322 | 59 | 58 | 98.3051 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.5261 | 91.8816 | 95.2305 | 60.9680 | 1211 | 107 | 1198 | 60 | 58 | 96.6667 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 46.2642 | 97.2779 | 30.3489 | 80.4847 | 2573 | 72 | 2627 | 6029 | 58 | 0.9620 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e0 | * | 66.9120 | 61.7424 | 73.0263 | 82.9213 | 163 | 101 | 222 | 82 | 58 | 70.7317 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0062 | 96.7177 | 99.3296 | 54.4844 | 19536 | 663 | 19261 | 130 | 58 | 44.6154 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.1970 | 96.8085 | 86.2004 | 69.9943 | 455 | 15 | 456 | 73 | 58 | 79.4521 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 53.9147 | 55.1698 | 52.7154 | 94.4211 | 715 | 581 | 728 | 653 | 58 | 8.8821 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 30.2294 | 87.6521 | 0 | 0 | 224 | 517 | 58 | 11.2186 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 30.5499 | 87.9361 | 0 | 0 | 150 | 341 | 58 | 17.0088 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 30.5499 | 87.9361 | 0 | 0 | 150 | 341 | 58 | 17.0088 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 23.8291 | 16.6493 | 41.8960 | 68.3446 | 160 | 801 | 137 | 190 | 58 | 30.5263 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.0186 | 30.4348 | 41.2281 | 58.5455 | 49 | 112 | 47 | 67 | 58 | 86.5672 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 37.4948 | 41.7896 | 34.0005 | 84.4865 | 2550 | 3552 | 2650 | 5144 | 58 | 1.1275 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 85.4527 | 79.0606 | 92.9693 | 74.0678 | 9039 | 2394 | 9058 | 685 | 58 | 8.4672 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e1 | het | 81.1378 | 88.3142 | 75.0400 | 90.1683 | 461 | 61 | 469 | 156 | 58 | 37.1795 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 69.6970 | 97.1831 | 54.3307 | 50.1961 | 69 | 2 | 69 | 58 | 58 | 100.0000 | |
| anovak-vg | SNP | * | map_l100_m0_e0 | homalt | 87.9850 | 78.9931 | 99.2870 | 62.5031 | 9179 | 2441 | 9052 | 65 | 58 | 89.2308 | |