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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59851-59900 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 38.0210 | 46.1837 | 32.3103 | 83.9205 | 357 | 416 | 379 | 794 | 8 | 1.0076 | |
| asubramanian-gatk | SNP | tv | map_l250_m2_e0 | het | 31.0570 | 18.4021 | 99.4429 | 98.7043 | 357 | 1583 | 357 | 2 | 0 | 0.0000 | |
| anovak-vg | INDEL | * | func_cds | * | 81.4334 | 80.2247 | 82.6790 | 38.5816 | 357 | 88 | 358 | 75 | 54 | 72.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.7791 | 28.9773 | 35.1807 | 45.7989 | 357 | 875 | 438 | 807 | 617 | 76.4560 | |
| asubramanian-gatk | INDEL | D1_5 | segdup | homalt | 99.5816 | 99.4429 | 99.7207 | 94.5193 | 357 | 2 | 357 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3046 | 98.8920 | 99.7207 | 63.3572 | 357 | 4 | 357 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | segdup | homalt | 99.7207 | 99.4429 | 100.0000 | 94.9012 | 357 | 2 | 356 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e0 | homalt | 98.7544 | 98.0769 | 99.4413 | 85.9828 | 357 | 7 | 356 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6296 | 93.9474 | 99.4695 | 63.7151 | 357 | 23 | 375 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e1 | homalt | 79.1574 | 66.1111 | 98.6188 | 77.9671 | 357 | 183 | 357 | 5 | 2 | 40.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.1659 | 98.8920 | 99.4413 | 56.2882 | 357 | 4 | 356 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.9013 | 72.7088 | 99.1667 | 31.9471 | 357 | 134 | 357 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | segdup | homalt | 99.7207 | 99.4429 | 100.0000 | 94.4210 | 357 | 2 | 357 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.0404 | 92.7273 | 97.4719 | 75.5662 | 357 | 28 | 347 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e0 | homalt | 98.8950 | 98.3516 | 99.4444 | 84.6743 | 358 | 6 | 358 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4702 | 93.2292 | 95.7447 | 81.9664 | 358 | 26 | 360 | 16 | 12 | 75.0000 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 38.7866 | 0.0000 | 0.0000 | 358 | 565 | 0 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | segdup | homalt | 99.5828 | 99.7214 | 99.4444 | 94.2939 | 358 | 1 | 358 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | segdup | homalt | 99.8605 | 99.7214 | 100.0000 | 92.9966 | 358 | 1 | 355 | 0 | 0 | ||
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 69.6084 | 54.3247 | 96.8586 | 71.6196 | 358 | 301 | 370 | 12 | 11 | 91.6667 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 69.6084 | 54.3247 | 96.8586 | 71.6196 | 358 | 301 | 370 | 12 | 11 | 91.6667 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | homalt | 82.8857 | 72.7642 | 96.2779 | 92.5618 | 358 | 134 | 388 | 15 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e0 | homalt | 98.0337 | 98.3516 | 97.7178 | 87.9259 | 358 | 6 | 471 | 11 | 10 | 90.9091 | |
| gduggal-bwaplat | INDEL | D6_15 | map_siren | * | 81.5490 | 70.3340 | 97.0190 | 92.0577 | 358 | 151 | 358 | 11 | 3 | 27.2727 | |
| jpowers-varprowl | INDEL | D6_15 | map_siren | * | 73.9453 | 70.3340 | 77.9476 | 83.7819 | 358 | 151 | 357 | 101 | 93 | 92.0792 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e0 | homalt | 98.8950 | 98.3516 | 99.4444 | 86.2385 | 358 | 6 | 358 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | segdup | homalt | 99.5828 | 99.7214 | 99.4444 | 94.1766 | 358 | 1 | 358 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3065 | 99.1690 | 99.4444 | 61.2487 | 358 | 3 | 358 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | D1_5 | segdup | homalt | 99.8605 | 99.7214 | 100.0000 | 94.5201 | 358 | 1 | 358 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.5665 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.5493 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 85.9225 | 80.8559 | 91.6667 | 87.7792 | 359 | 85 | 341 | 31 | 12 | 38.7097 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.3724 | 82.3394 | 59.9338 | 79.2083 | 359 | 77 | 362 | 242 | 234 | 96.6942 | |
| bgallagher-sentieon | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.4986 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.5295 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.1708 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 81.7768 | 0.0000 | 0.0000 | 359 | 80 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 93.6878 | 359 | 0 | 355 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | segdup | homalt | 99.8609 | 100.0000 | 99.7222 | 94.4853 | 359 | 0 | 359 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.5493 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e1 | homalt | 74.9478 | 66.4815 | 85.8852 | 77.4663 | 359 | 181 | 359 | 59 | 57 | 96.6102 | |
| hfeng-pmm1 | INDEL | D1_5 | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 93.9603 | 359 | 0 | 359 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D1_5 | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 93.8242 | 359 | 0 | 359 | 0 | 0 | ||
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e0 | homalt | 99.1713 | 98.6264 | 99.7222 | 85.0436 | 359 | 5 | 359 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5839 | 99.4460 | 99.7222 | 61.9048 | 359 | 2 | 359 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 94.1176 | 359 | 0 | 359 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D1_5 | segdup | homalt | 97.2973 | 100.0000 | 94.7368 | 94.2878 | 359 | 0 | 378 | 21 | 20 | 95.2381 | |
| jmaeng-gatk | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.5203 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.6407 | 94.7230 | 98.6376 | 55.9424 | 359 | 20 | 362 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 93.6879 | 359 | 0 | 356 | 0 | 0 | ||