PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58451-58500 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | tv | map_l125_m0_e0 | * | 75.4506 | 61.8308 | 96.7658 | 90.3686 | 4100 | 2531 | 4099 | 137 | 8 | 5.8394 | |
| eyeh-varpipe | INDEL | D6_15 | map_l150_m1_e0 | * | 88.5933 | 87.6712 | 89.5349 | 90.3695 | 64 | 9 | 77 | 9 | 9 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | segdup | hetalt | 94.6237 | 89.7959 | 100.0000 | 90.3720 | 44 | 5 | 44 | 0 | 0 | ||
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 43.7439 | 31.3305 | 72.4490 | 90.3733 | 73 | 160 | 71 | 27 | 10 | 37.0370 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 53.9683 | 37.7778 | 94.4444 | 90.3743 | 17 | 28 | 17 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m0_e0 | * | 94.8470 | 96.1938 | 93.5374 | 90.3764 | 278 | 11 | 275 | 19 | 3 | 15.7895 | |
| hfeng-pmm1 | INDEL | I16_PLUS | map_siren | het | 94.0000 | 95.9184 | 92.1569 | 90.3774 | 47 | 2 | 47 | 4 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e1 | het | 83.7912 | 96.0938 | 74.2812 | 90.3789 | 1353 | 55 | 1886 | 653 | 259 | 39.6631 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.7778 | 95.6522 | 100.0000 | 90.3790 | 66 | 3 | 66 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l100_m0_e0 | * | 46.8392 | 30.5957 | 99.8501 | 90.3797 | 6661 | 15110 | 6661 | 10 | 5 | 50.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.2222 | 95.4545 | 99.0566 | 90.3811 | 105 | 5 | 105 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | map_l150_m1_e0 | * | 94.6958 | 94.5205 | 94.8718 | 90.3822 | 69 | 4 | 74 | 4 | 2 | 50.0000 | |
| ckim-dragen | INDEL | D1_5 | HG002compoundhet | homalt | 66.9786 | 99.6564 | 50.4394 | 90.3836 | 290 | 1 | 287 | 282 | 281 | 99.6454 | |
| astatham-gatk | INDEL | D6_15 | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 90.3846 | 5 | 0 | 5 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D16_PLUS | map_l100_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 90.3846 | 4 | 0 | 5 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 90.3846 | 5 | 0 | 5 | 0 | 0 | ||
| mlin-fermikit | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 71.4286 | 55.5556 | 100.0000 | 90.3846 | 5 | 4 | 5 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D6_15 | map_l150_m1_e0 | homalt | 98.0392 | 96.1538 | 100.0000 | 90.3846 | 25 | 1 | 25 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | map_l100_m2_e1 | hetalt | 81.0811 | 68.1818 | 100.0000 | 90.3846 | 15 | 7 | 15 | 0 | 0 | ||
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 33.3333 | 100.0000 | 20.0000 | 90.3846 | 2 | 0 | 1 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | C16_PLUS | HG002compoundhet | het | 0.0000 | 0.0000 | 60.0000 | 90.3846 | 0 | 0 | 3 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l150_m1_e0 | het | 83.3287 | 73.7979 | 95.6863 | 90.3850 | 5126 | 1820 | 5124 | 231 | 8 | 3.4632 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.9723 | 87.2727 | 58.3961 | 90.3865 | 1104 | 161 | 1085 | 773 | 47 | 6.0802 | |
| egarrison-hhga | SNP | tv | segdup | homalt | 99.7379 | 99.8765 | 99.5996 | 90.3915 | 3234 | 4 | 3234 | 13 | 13 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m2_e0 | * | 97.9932 | 98.6506 | 97.3445 | 90.3934 | 1389 | 19 | 1393 | 38 | 6 | 15.7895 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e1 | het | 96.9616 | 98.1481 | 95.8034 | 90.3939 | 795 | 15 | 799 | 35 | 1 | 2.8571 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l150_m2_e1 | * | 98.4994 | 98.6817 | 98.3178 | 90.3967 | 524 | 7 | 526 | 9 | 2 | 22.2222 | |
| ltrigg-rtg2 | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 99.6403 | 90.3972 | 0 | 0 | 277 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | ti | map_l250_m1_e0 | het | 98.1612 | 98.9218 | 97.4121 | 90.4001 | 2936 | 32 | 2936 | 78 | 16 | 20.5128 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m1_e0 | * | 89.6858 | 94.8617 | 85.0455 | 90.4043 | 480 | 26 | 654 | 115 | 40 | 34.7826 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l125_m1_e0 | homalt | 96.5517 | 93.3333 | 100.0000 | 90.4110 | 14 | 1 | 14 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I6_15 | map_l125_m2_e0 | hetalt | 93.3333 | 87.5000 | 100.0000 | 90.4110 | 7 | 1 | 7 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | map_l125_m2_e0 | hetalt | 93.3333 | 87.5000 | 100.0000 | 90.4110 | 7 | 1 | 7 | 0 | 0 | ||
| jli-custom | INDEL | I6_15 | map_l125_m1_e0 | homalt | 96.5517 | 93.3333 | 100.0000 | 90.4110 | 14 | 1 | 14 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | map_l125_m1_e0 | hetalt | 93.3333 | 87.5000 | 100.0000 | 90.4110 | 7 | 1 | 7 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I16_PLUS | map_l100_m1_e0 | het | 76.9231 | 83.3333 | 71.4286 | 90.4110 | 15 | 3 | 15 | 6 | 3 | 50.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 89.3617 | 80.7692 | 100.0000 | 90.4110 | 21 | 5 | 21 | 0 | 0 | ||
| mlin-fermikit | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 90.4110 | 7 | 7 | 7 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | * | map_l150_m0_e0 | * | 97.1639 | 96.4981 | 97.8389 | 90.4125 | 496 | 18 | 498 | 11 | 4 | 36.3636 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e0 | het | 97.4935 | 97.4186 | 97.5685 | 90.4134 | 3170 | 84 | 3170 | 79 | 22 | 27.8481 | |
| gduggal-bwavard | INDEL | I16_PLUS | map_l100_m1_e0 | * | 69.3878 | 65.3846 | 73.9130 | 90.4167 | 17 | 9 | 17 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l150_m1_e0 | homalt | 93.8776 | 88.4615 | 100.0000 | 90.4167 | 23 | 3 | 23 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 90.4534 | 84.0140 | 97.9620 | 90.4179 | 720 | 137 | 721 | 15 | 1 | 6.6667 | |
| cchapple-custom | INDEL | D6_15 | map_l150_m2_e0 | * | 95.2619 | 95.1220 | 95.4023 | 90.4185 | 78 | 4 | 83 | 4 | 2 | 50.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e0 | hetalt | 80.0000 | 66.6667 | 100.0000 | 90.4192 | 16 | 8 | 16 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | hetalt | 80.0000 | 66.6667 | 100.0000 | 90.4192 | 16 | 8 | 16 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l250_m1_e0 | * | 64.1591 | 47.3553 | 99.4475 | 90.4206 | 3420 | 3802 | 3420 | 19 | 3 | 15.7895 | |
| hfeng-pmm2 | INDEL | * | map_l150_m2_e1 | * | 97.8966 | 98.4712 | 97.3288 | 90.4206 | 1417 | 22 | 1421 | 39 | 7 | 17.9487 | |
| ckim-gatk | INDEL | * | map_l100_m2_e0 | het | 96.1386 | 98.5696 | 93.8246 | 90.4219 | 2274 | 33 | 2279 | 150 | 14 | 9.3333 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 88.5010 | 94.0928 | 83.5366 | 90.4222 | 1338 | 84 | 1370 | 270 | 90 | 33.3333 | |