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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51251-51300 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 73.0717 | 83.3333 | 65.0602 | 84.3396 | 55 | 11 | 54 | 29 | 28 | 96.5517 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 61.2714 | 47.5666 | 86.0697 | 84.3397 | 1036 | 1142 | 1038 | 168 | 41 | 24.4048 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m1_e0 | het | 97.8601 | 97.5207 | 98.2019 | 84.3405 | 708 | 18 | 710 | 13 | 2 | 15.3846 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.8914 | 94.3741 | 97.4582 | 84.3416 | 1342 | 80 | 1342 | 35 | 25 | 71.4286 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m0_e0 | het | 97.7076 | 97.2927 | 98.1261 | 84.3425 | 575 | 16 | 576 | 11 | 2 | 18.1818 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | * | 94.5181 | 98.7142 | 90.6642 | 84.3431 | 11209 | 146 | 11207 | 1154 | 67 | 5.8059 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.6885 | 100.0000 | 64.8649 | 84.3441 | 169 | 0 | 72 | 39 | 38 | 97.4359 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | het | 66.0619 | 55.5447 | 81.4921 | 84.3450 | 2274 | 1820 | 2272 | 516 | 182 | 35.2713 | |
| hfeng-pmm3 | INDEL | D6_15 | map_siren | het | 98.5599 | 97.8571 | 99.2727 | 84.3483 | 274 | 6 | 273 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 78.2617 | 65.5172 | 97.1616 | 84.3499 | 893 | 470 | 890 | 26 | 7 | 26.9231 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m2_e0 | * | 92.7783 | 91.2879 | 94.3182 | 84.3509 | 241 | 23 | 249 | 15 | 8 | 53.3333 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e1 | het | 97.6450 | 97.2258 | 98.0678 | 84.3523 | 2278 | 65 | 2284 | 45 | 20 | 44.4444 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.5982 | 99.4083 | 63.6364 | 84.3528 | 168 | 1 | 70 | 40 | 39 | 97.5000 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m1_e0 | het | 85.8620 | 76.3441 | 98.0912 | 84.3537 | 923 | 286 | 925 | 18 | 6 | 33.3333 | |
| astatham-gatk | INDEL | * | map_siren | het | 96.3193 | 94.2990 | 98.4281 | 84.3550 | 4251 | 257 | 4258 | 68 | 8 | 11.7647 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.7863 | 99.5736 | 100.0000 | 84.3551 | 467 | 2 | 467 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I1_5 | map_l150_m2_e1 | homalt | 97.7667 | 96.5686 | 98.9950 | 84.3553 | 197 | 7 | 197 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 38.8523 | 42.9872 | 35.4430 | 84.3564 | 236 | 313 | 252 | 459 | 4 | 0.8715 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l100_m2_e0 | * | 87.0856 | 78.8889 | 97.1831 | 84.3612 | 71 | 19 | 69 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e1 | * | 96.0874 | 94.0096 | 98.2592 | 84.3618 | 3531 | 225 | 3556 | 63 | 22 | 34.9206 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.9967 | 98.0769 | 97.9167 | 84.3648 | 51 | 1 | 47 | 1 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | * | 94.5415 | 98.7220 | 90.7006 | 84.3649 | 11355 | 147 | 11353 | 1164 | 68 | 5.8419 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m1_e0 | homalt | 99.6259 | 99.4400 | 99.8126 | 84.3683 | 1598 | 9 | 1598 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m0_e0 | * | 98.1543 | 97.7901 | 98.5213 | 84.3687 | 531 | 12 | 533 | 8 | 3 | 37.5000 | |
| mlin-fermikit | INDEL | * | map_siren | hetalt | 76.4268 | 62.3482 | 98.7179 | 84.3687 | 154 | 93 | 154 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | * | map_l100_m2_e1 | * | 81.7169 | 69.9148 | 98.3127 | 84.3697 | 2626 | 1130 | 2622 | 45 | 21 | 46.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9042 | 98.8304 | 98.9781 | 84.3732 | 1352 | 16 | 1356 | 14 | 4 | 28.5714 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m2_e1 | het | 98.1972 | 97.4074 | 99.0000 | 84.3750 | 789 | 21 | 792 | 8 | 5 | 62.5000 | |
| gduggal-bwaplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 86.9565 | 76.9231 | 100.0000 | 84.3750 | 10 | 3 | 10 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 86.9565 | 76.9231 | 100.0000 | 84.3750 | 10 | 3 | 10 | 0 | 0 | ||
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 100.0000 | 100.0000 | 100.0000 | 84.3750 | 45 | 0 | 45 | 0 | 0 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 0.0000 | 0.0000 | 84.3750 | 0 | 0 | 0 | 5 | 0 | 0.0000 | ||
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e1 | homalt | 98.9777 | 99.1254 | 98.8304 | 84.3764 | 340 | 3 | 338 | 4 | 1 | 25.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7465 | 97.5904 | 97.9032 | 84.3789 | 810 | 20 | 1214 | 26 | 17 | 65.3846 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m1_e0 | homalt | 95.4751 | 92.5439 | 98.5981 | 84.3796 | 211 | 17 | 211 | 3 | 1 | 33.3333 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e0 | * | 96.9231 | 95.4545 | 98.4375 | 84.3807 | 252 | 12 | 252 | 4 | 1 | 25.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.2766 | 99.2958 | 76.2757 | 84.3842 | 846 | 6 | 852 | 265 | 167 | 63.0189 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | * | 65.8291 | 50.0000 | 96.3235 | 84.3858 | 132 | 132 | 131 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e0 | * | 85.4172 | 75.1462 | 98.9403 | 84.3863 | 1028 | 340 | 1027 | 11 | 5 | 45.4545 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.6256 | 98.1818 | 99.0734 | 84.3863 | 1242 | 23 | 1283 | 12 | 10 | 83.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.3614 | 86.2069 | 94.9367 | 84.3874 | 75 | 12 | 75 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 59.4595 | 59.4595 | 59.4595 | 84.3882 | 22 | 15 | 22 | 15 | 6 | 40.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 59.2949 | 45.8221 | 83.9901 | 84.3906 | 340 | 402 | 341 | 65 | 1 | 1.5385 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | * | 98.3031 | 98.4384 | 98.1682 | 84.3925 | 3530 | 56 | 3537 | 66 | 13 | 19.6970 | |
| hfeng-pmm2 | INDEL | * | map_l125_m1_e0 | homalt | 99.3179 | 99.4536 | 99.1826 | 84.3929 | 728 | 4 | 728 | 6 | 4 | 66.6667 | |
| eyeh-varpipe | SNP | ti | map_l150_m0_e0 | het | 98.2368 | 99.2937 | 97.2021 | 84.3948 | 5061 | 36 | 4968 | 143 | 4 | 2.7972 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9616 | 98.9247 | 98.9986 | 84.3973 | 1380 | 15 | 1384 | 14 | 4 | 28.5714 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2348 | 98.9437 | 99.5277 | 84.3986 | 843 | 9 | 843 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2612 | 99.0548 | 99.4685 | 84.3994 | 2620 | 25 | 2620 | 14 | 6 | 42.8571 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.6970 | 85.0575 | 94.8718 | 84.4000 | 74 | 13 | 74 | 4 | 2 | 50.0000 | |