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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19801-19850 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 40.0000 | 93.2432 | 0 | 0 | 2 | 3 | 2 | 66.6667 | |
| gduggal-snapfb | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 40.0000 | 95.6710 | 0 | 0 | 4 | 6 | 4 | 66.6667 | |
| gduggal-snapfb | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 25.0000 | 95.2941 | 0 | 0 | 1 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | INDEL | I1_5 | segdup | * | 94.4660 | 90.2738 | 99.0664 | 96.2092 | 956 | 103 | 955 | 9 | 6 | 66.6667 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002compoundhet | hetalt | 85.9482 | 75.6238 | 99.5374 | 35.2988 | 6456 | 2081 | 6455 | 30 | 20 | 66.6667 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 64.7059 | 64.7059 | 64.7059 | 99.6822 | 11 | 6 | 11 | 6 | 4 | 66.6667 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 76.9231 | 100.0000 | 62.5000 | 99.6580 | 10 | 0 | 10 | 6 | 4 | 66.6667 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.7592 | 72.2584 | 99.6141 | 35.3161 | 1555 | 597 | 1549 | 6 | 4 | 66.6667 | |
| gduggal-bwavard | INDEL | * | map_l100_m0_e0 | homalt | 95.5388 | 92.5344 | 98.7448 | 78.4685 | 471 | 38 | 472 | 6 | 4 | 66.6667 | |
| gduggal-bwavard | INDEL | * | map_l250_m1_e0 | homalt | 94.3396 | 91.7431 | 97.0874 | 92.8073 | 100 | 9 | 100 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e0 | homalt | 94.6429 | 92.1739 | 97.2477 | 93.3211 | 106 | 9 | 106 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e1 | homalt | 94.6903 | 92.2414 | 97.2727 | 93.4368 | 107 | 9 | 107 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | * | map_siren | homalt | 95.6313 | 91.9397 | 99.6318 | 70.4973 | 2441 | 214 | 2435 | 9 | 6 | 66.6667 | |
| gduggal-bwavard | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 57.1429 | 95.1389 | 0 | 0 | 4 | 3 | 2 | 66.6667 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | homalt | 95.8338 | 95.7466 | 95.9213 | 42.3182 | 12876 | 572 | 12817 | 545 | 363 | 66.6055 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.2067 | 39.4727 | 40.9685 | 65.1113 | 1048 | 1607 | 1066 | 1536 | 1023 | 66.6016 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 73.7262 | 74.1156 | 73.3408 | 74.2090 | 70000 | 24447 | 70171 | 25507 | 16983 | 66.5817 | |
| ciseli-custom | INDEL | D6_15 | * | * | 61.9102 | 60.9636 | 62.8867 | 53.8982 | 15906 | 10185 | 15938 | 9406 | 6255 | 66.5001 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.0130 | 91.8782 | 84.4600 | 56.4024 | 1086 | 96 | 1087 | 200 | 133 | 66.5000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 4.7196 | 2.6063 | 24.9453 | 76.2474 | 106 | 3961 | 114 | 343 | 228 | 66.4723 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 9.3373 | 5.7895 | 24.1150 | 76.0466 | 77 | 1253 | 109 | 343 | 228 | 66.4723 | |
| gduggal-bwavard | INDEL | I1_5 | map_siren | het | 94.0644 | 97.9179 | 90.5028 | 86.3515 | 1646 | 35 | 1620 | 170 | 113 | 66.4706 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.2978 | 89.3146 | 95.4870 | 71.2322 | 5734 | 686 | 6813 | 322 | 214 | 66.4596 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.2978 | 89.3146 | 95.4870 | 71.2322 | 5734 | 686 | 6813 | 322 | 214 | 66.4596 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | * | 70.6710 | 66.2407 | 75.7364 | 88.0952 | 2488 | 1268 | 2494 | 799 | 531 | 66.4581 | |
| dgrover-gatk | INDEL | D16_PLUS | * | * | 97.8781 | 98.0395 | 97.7172 | 70.6733 | 6651 | 133 | 6635 | 155 | 103 | 66.4516 | |
| anovak-vg | INDEL | I16_PLUS | * | * | 32.9342 | 25.0588 | 48.0286 | 39.2493 | 1598 | 4779 | 1547 | 1674 | 1112 | 66.4277 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 70.6515 | 66.8199 | 74.9493 | 62.1061 | 727 | 361 | 739 | 247 | 164 | 66.3968 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.2600 | 94.9290 | 95.5934 | 73.1707 | 5148 | 275 | 5163 | 238 | 158 | 66.3866 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.2600 | 94.9290 | 95.5934 | 73.1707 | 5148 | 275 | 5163 | 238 | 158 | 66.3866 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e0 | het | 96.1330 | 95.6220 | 96.6495 | 82.3053 | 2206 | 101 | 3000 | 104 | 69 | 66.3462 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 73.8753 | 73.0416 | 74.7283 | 69.3443 | 3739 | 1380 | 3850 | 1302 | 863 | 66.2826 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1071 | 97.0183 | 99.2207 | 69.5547 | 32245 | 991 | 32847 | 258 | 171 | 66.2791 | |
| dgrover-gatk | INDEL | I6_15 | * | het | 99.0704 | 98.9435 | 99.1977 | 59.7099 | 9927 | 106 | 9891 | 80 | 53 | 66.2500 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.1742 | 99.7330 | 91.0140 | 84.2317 | 1494 | 4 | 1499 | 148 | 98 | 66.2162 | |
| hfeng-pmm3 | SNP | * | * | homalt | 99.9916 | 99.9889 | 99.9942 | 17.9575 | 1180030 | 131 | 1180013 | 68 | 45 | 66.1765 | |
| anovak-vg | SNP | ti | HG002compoundhet | homalt | 82.5870 | 78.8207 | 86.7313 | 34.8753 | 5828 | 1566 | 5275 | 807 | 534 | 66.1710 | |
| jpowers-varprowl | SNP | tv | * | homalt | 99.7396 | 99.9576 | 99.5225 | 24.1122 | 376963 | 160 | 377038 | 1809 | 1197 | 66.1692 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.3667 | 99.3548 | 95.4567 | 60.8139 | 16323 | 106 | 16325 | 777 | 514 | 66.1519 | |
| qzeng-custom | INDEL | * | HG002compoundhet | * | 82.2978 | 79.3825 | 85.4354 | 55.6867 | 23783 | 6177 | 36410 | 6207 | 4106 | 66.1511 | |
| ciseli-custom | INDEL | * | map_l100_m1_e0 | * | 70.4613 | 65.9230 | 75.6705 | 87.5050 | 2364 | 1222 | 2370 | 762 | 504 | 66.1417 | |
| ghariani-varprowl | SNP | tv | HG002complexvar | homalt | 99.3856 | 99.9338 | 98.8434 | 25.4168 | 95048 | 63 | 95121 | 1113 | 736 | 66.1276 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.3280 | 92.3546 | 90.3239 | 69.1828 | 2271 | 188 | 2231 | 239 | 158 | 66.1088 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6068 | 96.9183 | 98.3051 | 69.3951 | 3428 | 109 | 3422 | 59 | 39 | 66.1017 | |
| hfeng-pmm2 | INDEL | I6_15 | * | het | 98.7550 | 98.1162 | 99.4021 | 57.6463 | 9844 | 189 | 9809 | 59 | 39 | 66.1017 | |
| gduggal-bwavard | INDEL | I1_5 | map_siren | * | 93.4444 | 92.8453 | 94.0513 | 82.2555 | 2790 | 215 | 2751 | 174 | 115 | 66.0920 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 89.2684 | 99.7868 | 80.7560 | 85.2172 | 468 | 1 | 470 | 112 | 74 | 66.0714 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e0 | * | 98.5577 | 98.2428 | 98.8746 | 88.2672 | 4920 | 88 | 4920 | 56 | 37 | 66.0714 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.5069 | 96.4277 | 92.6612 | 46.2676 | 15197 | 563 | 42020 | 3328 | 2198 | 66.0457 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e1 | * | 98.3291 | 97.9967 | 98.6638 | 88.0879 | 7827 | 160 | 7827 | 106 | 70 | 66.0377 | |