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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62951-63000 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 79.1201 | 65.5963 | 99.6683 | 30.7692 | 572 | 300 | 601 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.2310 | 86.9440 | 98.2026 | 35.7143 | 606 | 91 | 601 | 11 | 11 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 24.5228 | 33.9401 | 19.1964 | 80.6408 | 578 | 1125 | 602 | 2534 | 12 | 0.4736 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.2012 | 96.5257 | 97.8862 | 78.6532 | 639 | 23 | 602 | 13 | 7 | 53.8462 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.1774 | 98.6907 | 99.6689 | 83.7284 | 603 | 8 | 602 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.1763 | 98.5270 | 99.8342 | 82.2959 | 602 | 9 | 602 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.1228 | 96.5257 | 97.7273 | 78.8316 | 639 | 23 | 602 | 14 | 8 | 57.1429 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1492 | 94.4109 | 91.9207 | 73.5164 | 625 | 37 | 603 | 53 | 16 | 30.1887 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5033 | 96.1905 | 98.8525 | 65.9408 | 606 | 24 | 603 | 7 | 6 | 85.7143 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 80.4790 | 92.6941 | 71.1085 | 79.3774 | 609 | 48 | 603 | 245 | 24 | 9.7959 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 57.3083 | 74.2240 | 46.6718 | 65.6383 | 550 | 191 | 603 | 689 | 262 | 38.0261 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.1786 | 98.8543 | 99.5050 | 85.3976 | 604 | 7 | 603 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.1776 | 98.6907 | 99.6694 | 83.8924 | 603 | 8 | 603 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8948 | 95.1662 | 96.6346 | 75.0898 | 630 | 32 | 603 | 21 | 15 | 71.4286 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3366 | 95.7143 | 99.0148 | 63.7284 | 603 | 27 | 603 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.2605 | 98.8543 | 99.6700 | 82.3014 | 604 | 7 | 604 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0006 | 75.5556 | 92.0732 | 84.2949 | 544 | 176 | 604 | 52 | 4 | 7.6923 | |
| gduggal-snapplat | INDEL | * | map_l125_m1_e0 | homalt | 84.6016 | 75.1366 | 96.7949 | 89.4755 | 550 | 182 | 604 | 20 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | map_l250_m0_e0 | homalt | 97.4194 | 96.0254 | 98.8543 | 92.0297 | 604 | 25 | 604 | 7 | 4 | 57.1429 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.9506 | 83.7500 | 99.5058 | 87.7720 | 603 | 117 | 604 | 3 | 1 | 33.3333 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 42.4890 | 35.9504 | 51.9347 | 63.3123 | 348 | 620 | 604 | 559 | 103 | 18.4258 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.4202 | 96.3492 | 96.4912 | 68.0265 | 607 | 23 | 605 | 22 | 7 | 31.8182 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5020 | 96.0317 | 99.0180 | 65.9610 | 605 | 25 | 605 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | homalt | 98.9370 | 99.0180 | 98.8562 | 82.4087 | 605 | 6 | 605 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | I1_5 | HG002complexvar | hetalt | 90.5910 | 83.2561 | 99.3432 | 68.2647 | 1437 | 289 | 605 | 4 | 4 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0728 | 99.4536 | 98.6949 | 79.7288 | 546 | 3 | 605 | 8 | 1 | 12.5000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.6512 | 96.3492 | 96.9551 | 67.3640 | 607 | 23 | 605 | 19 | 7 | 36.8421 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.9401 | 95.3968 | 98.5342 | 66.3746 | 601 | 29 | 605 | 9 | 6 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2669 | 96.0317 | 98.5342 | 65.6983 | 605 | 25 | 605 | 9 | 6 | 66.6667 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3451 | 96.0317 | 98.6949 | 65.7350 | 605 | 25 | 605 | 8 | 4 | 50.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m1_e0 | het | 83.7248 | 98.3402 | 72.8916 | 90.7572 | 474 | 8 | 605 | 225 | 50 | 22.2222 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 54.2716 | 87.3611 | 39.3624 | 86.5975 | 629 | 91 | 605 | 932 | 37 | 3.9700 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 22.3230 | 16.2712 | 35.5425 | 80.2066 | 432 | 2223 | 606 | 1099 | 407 | 37.0337 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 96.0116 | 93.0380 | 99.1817 | 48.3080 | 588 | 44 | 606 | 5 | 5 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | HG002complexvar | het | 88.3834 | 86.1654 | 90.7186 | 58.7909 | 573 | 92 | 606 | 62 | 11 | 17.7419 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3443 | 99.1817 | 99.5074 | 84.1571 | 606 | 5 | 606 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.4258 | 99.1817 | 99.6711 | 84.0629 | 606 | 5 | 606 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3443 | 99.1817 | 99.5074 | 84.1571 | 606 | 5 | 606 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | homalt | 97.8208 | 96.3434 | 99.3443 | 91.6882 | 606 | 23 | 606 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3443 | 99.1817 | 99.5074 | 82.7381 | 606 | 5 | 606 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5845 | 96.1905 | 99.0196 | 62.5917 | 606 | 24 | 606 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | SNP | ti | map_l250_m1_e0 | het | 33.8831 | 20.4178 | 99.5074 | 98.4836 | 606 | 2362 | 606 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | D1_5 | map_l150_m1_e0 | * | 81.6618 | 83.6820 | 79.7368 | 89.6132 | 600 | 117 | 606 | 154 | 60 | 38.9610 | |
| ciseli-custom | INDEL | I1_5 | map_siren | homalt | 62.7683 | 50.4950 | 82.9235 | 77.4631 | 612 | 600 | 607 | 125 | 97 | 77.6000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5100 | 96.3492 | 98.6992 | 65.8143 | 607 | 23 | 607 | 8 | 5 | 62.5000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 92.0685 | 92.3077 | 91.8306 | 51.3613 | 156 | 13 | 607 | 54 | 54 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.2641 | 99.3453 | 99.1830 | 83.4862 | 607 | 4 | 607 | 5 | 4 | 80.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5898 | 99.3453 | 99.8355 | 80.5937 | 607 | 4 | 607 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5898 | 99.3453 | 99.8355 | 81.4067 | 607 | 4 | 607 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5905 | 99.5090 | 99.6721 | 81.7529 | 608 | 3 | 608 | 2 | 2 | 100.0000 | |