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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62151-62200 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.5976 | 80.1449 | 79.0576 | 60.6684 | 8073 | 2000 | 10755 | 2849 | 1405 | 49.3155 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.3815 | 89.1767 | 95.8253 | 57.6036 | 3477 | 422 | 3489 | 152 | 75 | 49.3421 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4946 | 98.2087 | 98.7822 | 76.6731 | 6305 | 115 | 6246 | 77 | 38 | 49.3506 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4946 | 98.2087 | 98.7822 | 76.6731 | 6305 | 115 | 6246 | 77 | 38 | 49.3506 | |
| gduggal-snapfb | SNP | ti | map_l100_m0_e0 | * | 96.4920 | 96.2060 | 96.7797 | 70.0719 | 20945 | 826 | 20947 | 697 | 344 | 49.3544 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.9502 | 97.0480 | 96.8526 | 49.3747 | 2367 | 72 | 2431 | 79 | 39 | 49.3671 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0142 | 90.8795 | 95.2517 | 63.6364 | 1674 | 168 | 1665 | 83 | 41 | 49.3976 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 64.6167 | 62.4637 | 66.9234 | 55.7051 | 1506 | 905 | 1564 | 773 | 382 | 49.4179 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.7089 | 96.7345 | 94.7048 | 54.9593 | 27046 | 913 | 27829 | 1556 | 769 | 49.4216 | |
| ciseli-custom | INDEL | * | map_l250_m2_e1 | * | 57.7232 | 51.3514 | 65.9004 | 97.5500 | 171 | 162 | 172 | 89 | 44 | 49.4382 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.6041 | 74.3750 | 85.6240 | 66.7717 | 119 | 41 | 542 | 91 | 45 | 49.4505 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.7801 | 99.9228 | 97.6633 | 61.6275 | 3884 | 3 | 3887 | 93 | 46 | 49.4624 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 78.5739 | 85.5355 | 72.6602 | 82.1649 | 2324 | 393 | 2756 | 1037 | 513 | 49.4696 | |
| ciseli-custom | SNP | ti | * | homalt | 98.8778 | 99.5909 | 98.1749 | 17.4213 | 799754 | 3285 | 797240 | 14821 | 7334 | 49.4838 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e1 | * | 99.1837 | 98.5869 | 99.7877 | 69.5422 | 46535 | 667 | 46535 | 99 | 49 | 49.4949 | |
| ghariani-varprowl | SNP | ti | * | homalt | 99.8530 | 99.9608 | 99.7455 | 17.9110 | 802720 | 315 | 802769 | 2048 | 1014 | 49.5117 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.2427 | 99.4993 | 95.0863 | 76.1894 | 16890 | 85 | 16913 | 874 | 433 | 49.5423 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.2427 | 99.4993 | 95.0863 | 76.1894 | 16890 | 85 | 16913 | 874 | 433 | 49.5423 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3040 | 97.2229 | 99.4094 | 71.0102 | 32313 | 923 | 38374 | 228 | 113 | 49.5614 | |
| rpoplin-dv42 | SNP | * | map_l100_m0_e0 | het | 98.8725 | 98.8493 | 98.8958 | 68.4376 | 20961 | 244 | 20957 | 234 | 116 | 49.5726 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 91.2721 | 93.5191 | 89.1304 | 80.4771 | 10101 | 700 | 10578 | 1290 | 640 | 49.6124 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 59.8228 | 58.1169 | 61.6319 | 75.6941 | 1253 | 903 | 1624 | 1011 | 502 | 49.6538 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.1261 | 88.9650 | 87.3028 | 53.9810 | 15721 | 1950 | 17045 | 2479 | 1231 | 49.6571 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.1261 | 88.9650 | 87.3028 | 53.9810 | 15721 | 1950 | 17045 | 2479 | 1231 | 49.6571 | |
| rpoplin-dv42 | SNP | ti | * | het | 99.9511 | 99.9279 | 99.9742 | 18.1937 | 1280967 | 924 | 1280907 | 330 | 164 | 49.6970 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 92.1861 | 94.9340 | 89.5928 | 65.6359 | 9201 | 491 | 9857 | 1145 | 571 | 49.8690 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0121 | 98.4584 | 99.5720 | 70.6731 | 92993 | 1456 | 93299 | 401 | 200 | 49.8753 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.1730 | 89.2820 | 74.4143 | 49.8151 | 858 | 103 | 2827 | 972 | 485 | 49.8971 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 90.6695 | 93.1741 | 88.2960 | 82.0927 | 3863 | 283 | 4021 | 533 | 266 | 49.9062 | |
| gduggal-snapplat | SNP | * | map_l100_m2_e0 | het | 95.2448 | 95.0839 | 95.4062 | 81.1675 | 44118 | 2281 | 44154 | 2126 | 1062 | 49.9530 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 54.9650 | 39.1892 | 92.0000 | 88.1517 | 29 | 45 | 23 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 58.9713 | 44.0476 | 89.1892 | 83.3333 | 37 | 47 | 33 | 4 | 2 | 50.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 51.0638 | 44.4444 | 60.0000 | 98.6226 | 4 | 5 | 3 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_siren | hetalt | 38.7454 | 26.7857 | 70.0000 | 97.4795 | 30 | 82 | 28 | 12 | 6 | 50.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 15.6250 | 9.0909 | 55.5556 | 80.8511 | 4 | 40 | 5 | 4 | 2 | 50.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 37.8549 | 24.4898 | 83.3333 | 85.3659 | 12 | 37 | 10 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 80.0000 | 76.9231 | 83.3333 | 86.3636 | 10 | 3 | 10 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 86.6667 | 86.6667 | 86.6667 | 95.8564 | 13 | 2 | 13 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 86.6667 | 86.6667 | 86.6667 | 95.8564 | 13 | 2 | 13 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 88.3969 | 79.4375 | 99.6342 | 42.5683 | 2175 | 563 | 2179 | 8 | 4 | 50.0000 | |
| gduggal-snapplat | SNP | * | map_l100_m2_e1 | het | 95.2787 | 95.1235 | 95.4344 | 81.1824 | 44611 | 2287 | 44649 | 2136 | 1068 | 50.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 66.6667 | 66.6667 | 66.6667 | 88.4615 | 4 | 2 | 4 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 88.0000 | 91.6667 | 84.6154 | 94.6058 | 11 | 1 | 11 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 50.0000 | 39.1304 | 69.2308 | 97.4017 | 27 | 42 | 27 | 12 | 6 | 50.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 88.0000 | 91.6667 | 84.6154 | 94.6058 | 11 | 1 | 11 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 80.0000 | 76.9231 | 83.3333 | 86.3636 | 10 | 3 | 10 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 86.6667 | 86.6667 | 86.6667 | 95.8564 | 13 | 2 | 13 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 86.6667 | 86.6667 | 86.6667 | 95.8564 | 13 | 2 | 13 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | homalt | 98.0400 | 96.4677 | 99.6644 | 87.9687 | 2376 | 87 | 2376 | 8 | 4 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | homalt | 98.1474 | 96.6493 | 99.6928 | 88.8202 | 2596 | 90 | 2596 | 8 | 4 | 50.0000 | |