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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40701-40750 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 79.4795 | 89.6706 | 71.3684 | 71.4189 | 43284 | 4986 | 93686 | 37585 | 31016 | 82.5223 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 79.4760 | 66.4234 | 98.9130 | 80.7799 | 273 | 138 | 273 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | hetalt | 79.4743 | 66.1627 | 99.4916 | 57.4825 | 7395 | 3782 | 7437 | 38 | 38 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m2_e1 | het | 79.4702 | 98.3607 | 66.6667 | 96.2081 | 120 | 2 | 120 | 60 | 4 | 6.6667 | |
| anovak-vg | SNP | ti | map_l150_m1_e0 | * | 79.4593 | 85.7346 | 74.0400 | 78.6204 | 16900 | 2812 | 16756 | 5875 | 1329 | 22.6213 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 79.4582 | 83.0189 | 76.1905 | 81.2500 | 88 | 18 | 80 | 25 | 25 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e1 | homalt | 79.4574 | 66.1290 | 99.5146 | 88.0476 | 410 | 210 | 410 | 2 | 1 | 50.0000 | |
| gduggal-bwavard | INDEL | * | map_l250_m2_e0 | het | 79.4528 | 97.1429 | 67.2131 | 96.8634 | 204 | 6 | 205 | 100 | 13 | 13.0000 | |
| mlin-fermikit | INDEL | D6_15 | map_l125_m2_e1 | homalt | 79.4521 | 78.3784 | 80.5556 | 88.5350 | 29 | 8 | 29 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.4521 | 69.0476 | 93.5484 | 96.0710 | 29 | 13 | 29 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.4521 | 69.0476 | 93.5484 | 90.6627 | 29 | 13 | 29 | 2 | 1 | 50.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | hetalt | 79.4521 | 67.4419 | 96.6667 | 89.7959 | 29 | 14 | 29 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l100_m2_e1 | hetalt | 79.4521 | 67.4419 | 96.6667 | 89.7959 | 29 | 14 | 29 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.4509 | 70.3322 | 91.2863 | 53.7682 | 2456 | 1036 | 1540 | 147 | 142 | 96.5986 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e0 | homalt | 79.4494 | 66.1211 | 99.5074 | 87.9739 | 404 | 207 | 404 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 79.4494 | 75.6494 | 83.6513 | 75.4184 | 1631 | 525 | 1929 | 377 | 321 | 85.1459 | |
| mlin-fermikit | INDEL | I1_5 | * | hetalt | 79.4455 | 66.1635 | 99.3997 | 62.4768 | 7407 | 3788 | 7451 | 45 | 45 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 79.4418 | 90.8058 | 70.6058 | 71.2226 | 879 | 89 | 944 | 393 | 338 | 86.0051 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m2_e0 | * | 79.4406 | 78.8889 | 80.0000 | 92.4306 | 71 | 19 | 72 | 18 | 9 | 50.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 79.4326 | 66.6667 | 98.2456 | 72.4638 | 56 | 28 | 56 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | * | map_l150_m1_e0 | het | 79.4298 | 74.1520 | 85.5164 | 95.0714 | 634 | 221 | 679 | 115 | 19 | 16.5217 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 79.4291 | 78.9108 | 79.9542 | 56.7822 | 681 | 182 | 698 | 175 | 172 | 98.2857 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.4289 | 78.4553 | 80.4270 | 61.9241 | 193 | 53 | 678 | 165 | 80 | 48.4848 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.4286 | 65.8768 | 100.0000 | 53.5117 | 139 | 72 | 139 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.4286 | 65.8768 | 100.0000 | 53.6667 | 139 | 72 | 139 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | map_l150_m2_e0 | het | 79.4212 | 82.6087 | 76.4706 | 92.2844 | 38 | 8 | 39 | 12 | 7 | 58.3333 | |
| gduggal-snapplat | INDEL | * | map_l125_m0_e0 | het | 79.4200 | 74.1056 | 85.5556 | 95.1768 | 435 | 152 | 462 | 78 | 12 | 15.3846 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.4194 | 70.3704 | 91.1392 | 75.5418 | 95 | 40 | 72 | 7 | 5 | 71.4286 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.4183 | 79.5592 | 79.2778 | 75.7467 | 51260 | 13170 | 51089 | 13354 | 8419 | 63.0448 | |
| ciseli-custom | SNP | tv | map_l125_m2_e1 | * | 79.4183 | 74.5632 | 84.9497 | 78.4301 | 12420 | 4237 | 12412 | 2199 | 540 | 24.5566 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.4159 | 66.8404 | 97.8199 | 66.1276 | 4489 | 2227 | 4487 | 100 | 23 | 23.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m1_e0 | het | 79.4144 | 72.8814 | 87.2340 | 74.7312 | 43 | 16 | 82 | 12 | 10 | 83.3333 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.4110 | 79.6748 | 79.1489 | 83.7595 | 196 | 50 | 186 | 49 | 46 | 93.8776 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 79.4104 | 79.0850 | 79.7386 | 67.5159 | 121 | 32 | 122 | 31 | 27 | 87.0968 | |
| anovak-vg | SNP | tv | map_l150_m2_e1 | * | 79.4082 | 86.0633 | 73.7085 | 80.2069 | 9899 | 1603 | 9888 | 3527 | 846 | 23.9864 | |
| qzeng-custom | INDEL | D16_PLUS | * | * | 79.4045 | 91.9517 | 69.8705 | 62.5471 | 6238 | 546 | 6528 | 2815 | 413 | 14.6714 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 79.4045 | 68.0851 | 95.2381 | 93.5385 | 32 | 15 | 20 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 79.3964 | 87.2325 | 72.8520 | 53.8546 | 2446 | 358 | 2442 | 910 | 909 | 99.8901 | |
| ckim-dragen | INDEL | D16_PLUS | map_l100_m2_e1 | het | 79.3959 | 94.1176 | 68.6567 | 96.4037 | 48 | 3 | 46 | 21 | 3 | 14.2857 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 79.3931 | 78.6070 | 80.1951 | 58.1462 | 790 | 215 | 822 | 203 | 195 | 96.0591 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 79.3774 | 73.9130 | 85.7143 | 59.6154 | 34 | 12 | 36 | 6 | 5 | 83.3333 | |
| gduggal-snapvard | SNP | * | map_l250_m0_e0 | * | 79.3745 | 93.3489 | 69.0393 | 94.3087 | 1993 | 142 | 1969 | 883 | 24 | 2.7180 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 79.3739 | 80.8290 | 77.9703 | 91.5921 | 312 | 74 | 315 | 89 | 52 | 58.4270 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e0 | * | 79.3734 | 66.4917 | 98.4456 | 87.8826 | 760 | 383 | 760 | 12 | 6 | 50.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 79.3723 | 90.3851 | 70.7516 | 51.9765 | 3497 | 372 | 3464 | 1432 | 1427 | 99.6508 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 79.3685 | 71.2644 | 89.5522 | 70.7424 | 62 | 25 | 60 | 7 | 3 | 42.8571 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m0_e0 | het | 79.3681 | 85.0000 | 74.4361 | 85.1064 | 51 | 9 | 99 | 34 | 20 | 58.8235 | |
| ciseli-custom | SNP | tv | map_l100_m2_e1 | het | 79.3676 | 74.5012 | 84.9142 | 77.0349 | 11874 | 4064 | 11871 | 2109 | 75 | 3.5562 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 79.3672 | 73.6842 | 86.0000 | 99.4308 | 42 | 15 | 43 | 7 | 4 | 57.1429 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e1 | het | 79.3653 | 73.4102 | 86.3720 | 92.6210 | 1720 | 623 | 1876 | 296 | 32 | 10.8108 | |