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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61301-61350 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.3820 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.5664 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.4837 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 48.7545 | 54.7591 | 43.9366 | 94.6836 | 466 | 385 | 471 | 601 | 36 | 5.9900 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 51.3343 | 37.8608 | 79.6954 | 89.2663 | 446 | 732 | 471 | 120 | 38 | 31.6667 | |
| ghariani-varprowl | INDEL | * | map_l100_m0_e0 | homalt | 94.7686 | 92.5344 | 97.1134 | 82.2993 | 471 | 38 | 471 | 14 | 5 | 35.7143 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 58.3031 | 43.3824 | 88.8679 | 72.0464 | 472 | 616 | 471 | 59 | 57 | 96.6102 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e1 | * | 67.6724 | 54.1379 | 90.2299 | 81.0664 | 471 | 399 | 471 | 51 | 46 | 90.1961 | |
| ltrigg-rtg2 | INDEL | I1_5 | segdup | homalt | 99.6825 | 100.0000 | 99.3671 | 91.5023 | 473 | 0 | 471 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.9377 | 87.2897 | 99.3671 | 71.9361 | 467 | 68 | 471 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | segdup | homalt | 99.4720 | 99.5772 | 99.3671 | 92.4798 | 471 | 2 | 471 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 93.3540 | 87.6993 | 99.7881 | 34.6260 | 385 | 54 | 471 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.8593 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.8776 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | segdup | homalt | 99.4731 | 99.7886 | 99.1597 | 92.9261 | 472 | 1 | 472 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.0441 | 87.4766 | 99.3684 | 70.7692 | 468 | 67 | 472 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | het | 97.9184 | 96.7078 | 99.1597 | 85.5451 | 470 | 16 | 472 | 4 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | * | 92.9134 | 91.8288 | 94.0239 | 93.2052 | 472 | 42 | 472 | 30 | 20 | 66.6667 | |
| jmaeng-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.6416 | 98.1289 | 99.1597 | 89.6206 | 472 | 9 | 472 | 4 | 3 | 75.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l125_m2_e0 | het | 95.2520 | 94.7686 | 95.7404 | 89.4183 | 471 | 26 | 472 | 21 | 3 | 14.2857 | |
| ckim-dragen | INDEL | I1_5 | segdup | homalt | 99.4731 | 99.7886 | 99.1597 | 92.5718 | 472 | 1 | 472 | 4 | 4 | 100.0000 | |
| 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 | D1_5 | map_l150_m1_e0 | het | 89.0608 | 98.7552 | 81.0997 | 91.6235 | 476 | 6 | 472 | 110 | 12 | 10.9091 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8376 | 96.7213 | 94.9698 | 72.2501 | 472 | 16 | 472 | 25 | 21 | 84.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 93.3542 | 87.6993 | 99.7886 | 34.9381 | 385 | 54 | 472 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m1_e0 | het | 97.6164 | 97.5104 | 97.7226 | 86.9141 | 470 | 12 | 472 | 11 | 2 | 18.1818 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4713 | 99.5745 | 99.3684 | 67.9054 | 468 | 2 | 472 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.2239 | 74.1883 | 89.7338 | 67.9659 | 457 | 159 | 472 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | I1_5 | segdup | homalt | 99.3684 | 99.7886 | 98.9518 | 92.7375 | 472 | 1 | 472 | 5 | 5 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e0 | het | 97.2343 | 95.5734 | 98.9540 | 80.5770 | 475 | 22 | 473 | 5 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m2_e0 | het | 96.4087 | 94.3662 | 98.5417 | 86.5509 | 469 | 28 | 473 | 7 | 1 | 14.2857 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4840 | 98.9733 | 100.0000 | 60.3521 | 482 | 5 | 473 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m1_e0 | * | 96.8646 | 94.8617 | 98.9540 | 85.0251 | 480 | 26 | 473 | 5 | 1 | 20.0000 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | homalt | 98.4391 | 98.3368 | 98.5417 | 89.3000 | 473 | 8 | 473 | 7 | 4 | 57.1429 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.5417 | 98.3368 | 98.7474 | 89.6834 | 473 | 8 | 473 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 93.6119 | 88.1549 | 99.7890 | 35.1573 | 387 | 52 | 473 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.8361 | 88.2463 | 97.9296 | 62.5291 | 473 | 63 | 473 | 10 | 9 | 90.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9273 | 88.2463 | 98.1328 | 62.8086 | 473 | 63 | 473 | 9 | 8 | 88.8889 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7899 | 99.7908 | 99.7890 | 71.4801 | 477 | 1 | 473 | 1 | 1 | 100.0000 | |
| ciseli-custom | SNP | ti | * | hetalt | 87.1087 | 81.2715 | 93.8492 | 39.4958 | 473 | 109 | 473 | 31 | 17 | 54.8387 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9249 | 97.7178 | 98.1328 | 87.6884 | 471 | 11 | 473 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4742 | 98.9540 | 100.0000 | 75.3389 | 473 | 5 | 473 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m1_e0 | het | 98.1263 | 96.9136 | 99.3697 | 85.6928 | 471 | 15 | 473 | 3 | 2 | 66.6667 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e0 | het | 83.8926 | 81.3230 | 86.6300 | 94.6747 | 418 | 96 | 473 | 73 | 17 | 23.2877 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.6472 | 98.5447 | 98.7500 | 89.0884 | 474 | 7 | 474 | 6 | 3 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e1 | het | 96.3546 | 93.7008 | 99.1632 | 79.0901 | 476 | 32 | 474 | 4 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.8272 | 96.9199 | 96.7347 | 59.5376 | 472 | 15 | 474 | 16 | 14 | 87.5000 | |
| ndellapenna-hhga | INDEL | * | map_l150_m2_e0 | homalt | 98.6472 | 98.5447 | 98.7500 | 88.7981 | 474 | 7 | 474 | 6 | 4 | 66.6667 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m2_e1 | * | 76.1376 | 62.5235 | 97.3306 | 93.7113 | 332 | 199 | 474 | 13 | 8 | 61.5385 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.6326 | 78.2787 | 89.7727 | 73.4807 | 382 | 106 | 474 | 54 | 50 | 92.5926 | |