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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25201-25250 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.0990 | 53.8182 | 76.2478 | 70.5076 | 444 | 381 | 443 | 138 | 127 | 92.0290 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.0990 | 53.8182 | 76.2478 | 70.5076 | 444 | 381 | 443 | 138 | 127 | 92.0290 | |
| ndellapenna-hhga | INDEL | * | func_cds | * | 99.5516 | 99.7753 | 99.3289 | 89.8846 | 444 | 1 | 444 | 3 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.3128 | 76.1578 | 96.9697 | 63.3042 | 444 | 139 | 448 | 14 | 11 | 78.5714 | |
| ckim-vqsr | INDEL | * | func_cds | * | 99.4421 | 99.7753 | 99.1111 | 54.2683 | 444 | 1 | 446 | 4 | 1 | 25.0000 | |
| dgrover-gatk | INDEL | * | func_cds | * | 99.5531 | 99.7753 | 99.3318 | 45.1100 | 444 | 1 | 446 | 3 | 1 | 33.3333 | |
| jlack-gatk | INDEL | * | func_cds | * | 97.6994 | 99.7753 | 95.7082 | 54.1790 | 444 | 1 | 446 | 20 | 1 | 5.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 90.9909 | 83.7736 | 99.5690 | 47.3923 | 444 | 86 | 462 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 100.0000 | 100.0000 | 100.0000 | 32.3664 | 443 | 0 | 443 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.0964 | 94.2553 | 88.1423 | 65.1755 | 443 | 27 | 446 | 60 | 58 | 96.6667 | |
| jmaeng-gatk | INDEL | * | func_cds | * | 97.9088 | 99.5506 | 96.3203 | 53.9841 | 443 | 2 | 445 | 17 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.2608 | 90.4082 | 65.9420 | 80.5543 | 443 | 47 | 273 | 141 | 138 | 97.8723 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7748 | 100.0000 | 99.5506 | 33.1832 | 443 | 0 | 443 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | homalt | 95.3714 | 92.0998 | 98.8839 | 87.1375 | 443 | 38 | 443 | 5 | 3 | 60.0000 | |
| gduggal-bwavard | INDEL | I1_5 | segdup | homalt | 96.3005 | 93.6575 | 99.0971 | 89.4222 | 443 | 30 | 439 | 4 | 4 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | HG002compoundhet | hetalt | 0.0000 | 3.9635 | 0.0000 | 0.0000 | 443 | 10734 | 0 | 0 | 0 | ||
| ckim-dragen | INDEL | * | func_cds | * | 98.4444 | 99.5506 | 97.3626 | 49.5006 | 443 | 2 | 443 | 12 | 1 | 8.3333 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8873 | 100.0000 | 99.7748 | 33.9286 | 443 | 0 | 443 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7748 | 100.0000 | 99.5506 | 34.7507 | 443 | 0 | 443 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.3593 | 92.2917 | 96.5217 | 82.2462 | 443 | 37 | 444 | 16 | 15 | 93.7500 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7748 | 100.0000 | 99.5506 | 34.6549 | 443 | 0 | 443 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7748 | 100.0000 | 99.5506 | 34.4624 | 443 | 0 | 443 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | * | func_cds | * | 99.4388 | 99.5506 | 99.3274 | 89.6520 | 443 | 2 | 443 | 3 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e0 | homalt | 94.8608 | 92.0998 | 97.7925 | 87.5618 | 443 | 38 | 443 | 10 | 3 | 30.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 95.5771 | 92.0998 | 99.3274 | 67.6812 | 443 | 38 | 443 | 3 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | het | 71.4516 | 57.0142 | 95.6803 | 75.8729 | 443 | 334 | 443 | 20 | 12 | 60.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.9006 | 95.8874 | 100.0000 | 43.1730 | 443 | 19 | 437 | 0 | 0 | ||
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.9493 | 87.1795 | 99.5370 | 80.2016 | 442 | 65 | 430 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | segdup | homalt | 96.5066 | 93.4461 | 99.7743 | 93.3702 | 442 | 31 | 442 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 95.7746 | 91.8919 | 100.0000 | 57.9448 | 442 | 39 | 442 | 0 | 0 | ||
| jli-custom | INDEL | * | func_cds | * | 99.4376 | 99.3258 | 99.5495 | 41.4248 | 442 | 3 | 442 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8870 | 99.7743 | 100.0000 | 32.1045 | 442 | 1 | 442 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | * | func_cds | * | 99.4386 | 99.3258 | 99.5516 | 44.3196 | 442 | 3 | 444 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | * | func_cds | * | 99.6618 | 99.3258 | 100.0000 | 42.1121 | 442 | 3 | 444 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8870 | 99.7743 | 100.0000 | 31.3665 | 442 | 1 | 442 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 50.1083 | 46.0897 | 54.8947 | 70.8664 | 442 | 517 | 443 | 364 | 355 | 97.5275 | |
| jpowers-varprowl | INDEL | I1_5 | segdup | homalt | 95.4644 | 93.4461 | 97.5717 | 90.6347 | 442 | 31 | 442 | 11 | 11 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7743 | 99.7743 | 99.7743 | 34.9486 | 442 | 1 | 442 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.5495 | 99.7743 | 99.3258 | 34.4624 | 442 | 1 | 442 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6618 | 99.7743 | 99.5495 | 35.0877 | 442 | 1 | 442 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6602 | 99.7743 | 99.5465 | 28.6408 | 442 | 1 | 439 | 2 | 2 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | segdup | homalt | 95.0538 | 93.4461 | 96.7177 | 90.8251 | 442 | 31 | 442 | 15 | 11 | 73.3333 | |
| hfeng-pmm1 | INDEL | * | func_cds | * | 99.4386 | 99.3258 | 99.5516 | 42.1530 | 442 | 3 | 444 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e1 | homalt | 87.7237 | 81.8519 | 94.5032 | 88.3469 | 442 | 98 | 447 | 26 | 1 | 3.8462 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e1 | * | 89.6631 | 83.2392 | 97.1616 | 92.9647 | 442 | 89 | 445 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.8716 | 90.2041 | 68.5057 | 80.6495 | 442 | 48 | 298 | 137 | 123 | 89.7810 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 92.9548 | 89.6552 | 96.5066 | 51.9916 | 442 | 51 | 442 | 16 | 3 | 18.7500 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6618 | 99.7743 | 99.5495 | 35.0877 | 442 | 1 | 442 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.4355 | 91.8750 | 97.1429 | 81.8436 | 441 | 39 | 442 | 13 | 12 | 92.3077 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7738 | 99.5485 | 100.0000 | 27.1667 | 441 | 2 | 437 | 0 | 0 | ||