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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
44851-44900 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | * | map_siren | het | 87.4010 | 78.3274 | 98.8522 | 90.8215 | 3531 | 977 | 3531 | 41 | 15 | 36.5854 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m1_e0 | het | 82.4561 | 78.3333 | 87.0370 | 97.7070 | 47 | 13 | 47 | 7 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 87.5916 | 78.3357 | 99.3277 | 35.7451 | 546 | 151 | 591 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.9605 | 78.3357 | 97.7193 | 42.0142 | 546 | 151 | 557 | 13 | 12 | 92.3077 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 46.6236 | 78.3459 | 33.1864 | 69.7120 | 521 | 144 | 527 | 1061 | 1053 | 99.2460 | |
| gduggal-bwavard | SNP | tv | HG002compoundhet | * | 81.1305 | 78.3481 | 84.1178 | 52.1015 | 6991 | 1932 | 7113 | 1343 | 1177 | 87.6396 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 86.8020 | 78.3505 | 97.2973 | 84.9899 | 76 | 21 | 72 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 84.4444 | 78.3505 | 91.5663 | 89.1503 | 76 | 21 | 76 | 7 | 3 | 42.8571 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m2_e1 | * | 79.6787 | 78.3505 | 81.0526 | 92.1811 | 76 | 21 | 77 | 18 | 9 | 50.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 78.3532 | 100.0000 | 1513 | 418 | 0 | 0 | 0 | ||||
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 78.3532 | 100.0000 | 1513 | 418 | 0 | 0 | 0 | ||||
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.7194 | 78.3546 | 99.6265 | 31.7400 | 981 | 271 | 1067 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.4198 | 78.3582 | 96.3303 | 63.2997 | 420 | 116 | 420 | 16 | 14 | 87.5000 | |
| qzeng-custom | INDEL | D16_PLUS | * | hetalt | 78.3756 | 100.0000 | 1515 | 418 | 0 | 0 | 0 | ||||
| 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 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m2_e1 | homalt | 87.8788 | 78.3784 | 100.0000 | 84.8315 | 29 | 8 | 27 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D16_PLUS | segdup | het | 87.8788 | 78.3784 | 100.0000 | 97.0760 | 29 | 8 | 30 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 77.8216 | 78.3784 | 77.2727 | 72.3618 | 58 | 16 | 85 | 25 | 25 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | segdup | het | 82.8571 | 78.3784 | 87.8788 | 91.3613 | 29 | 8 | 29 | 4 | 3 | 75.0000 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m2_e1 | homalt | 62.4135 | 78.3784 | 51.8519 | 88.9117 | 29 | 8 | 28 | 26 | 24 | 92.3077 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 85.3778 | 78.3784 | 93.7500 | 77.9310 | 58 | 16 | 60 | 4 | 2 | 50.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l125_m2_e1 | homalt | 87.8788 | 78.3784 | 100.0000 | 84.9741 | 29 | 8 | 29 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 86.5672 | 78.3784 | 96.6667 | 70.5882 | 29 | 8 | 29 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 85.3367 | 78.3784 | 93.6508 | 78.1250 | 58 | 16 | 59 | 4 | 3 | 75.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l125_m2_e1 | homalt | 87.8788 | 78.3784 | 100.0000 | 84.8168 | 29 | 8 | 29 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.3659 | 78.3797 | 98.6795 | 72.5835 | 7914 | 2183 | 7921 | 106 | 54 | 50.9434 | |
| mlin-fermikit | INDEL | I1_5 | map_siren | homalt | 84.8214 | 78.3828 | 92.4125 | 74.4596 | 950 | 262 | 950 | 78 | 75 | 96.1538 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 87.8108 | 78.3843 | 99.8145 | 76.5550 | 1077 | 297 | 1076 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9251 | 78.3877 | 83.6323 | 72.4014 | 50506 | 13925 | 50171 | 9819 | 9240 | 94.1033 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 87.6621 | 78.3888 | 99.4236 | 31.5582 | 1012 | 279 | 1035 | 6 | 5 | 83.3333 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.1382 | 78.3947 | 98.0769 | 64.9494 | 2852 | 786 | 2856 | 56 | 50 | 89.2857 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.7364 | 78.3970 | 97.0612 | 92.7953 | 7160 | 1973 | 7167 | 217 | 34 | 15.6682 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.7364 | 78.3970 | 97.0612 | 92.7953 | 7160 | 1973 | 7167 | 217 | 34 | 15.6682 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.9148 | 78.4053 | 97.4964 | 52.0513 | 4012 | 1105 | 4011 | 103 | 89 | 86.4078 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | * | 83.7200 | 78.4062 | 89.8065 | 94.3591 | 610 | 168 | 696 | 79 | 18 | 22.7848 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7428 | 78.4150 | 94.5813 | 55.1133 | 752 | 207 | 768 | 44 | 43 | 97.7273 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | * | 80.1461 | 78.4226 | 81.9472 | 64.9485 | 9595 | 2640 | 10454 | 2303 | 1568 | 68.0851 | |
| qzeng-custom | INDEL | D16_PLUS | HG002compoundhet | hetalt | 0.0000 | 78.4232 | 0.0000 | 0.0000 | 1512 | 416 | 0 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 83.8326 | 78.4242 | 90.0421 | 57.6603 | 647 | 178 | 642 | 71 | 69 | 97.1831 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 83.8326 | 78.4242 | 90.0421 | 57.6603 | 647 | 178 | 642 | 71 | 69 | 97.1831 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 86.5995 | 78.4314 | 96.6667 | 94.1860 | 40 | 11 | 29 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 85.3255 | 78.4314 | 93.5484 | 94.5993 | 40 | 11 | 29 | 2 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m2_e1 | het | 69.5652 | 78.4314 | 62.5000 | 95.0349 | 40 | 11 | 40 | 24 | 21 | 87.5000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 48.8339 | 78.4314 | 35.4545 | 62.0035 | 80 | 22 | 78 | 142 | 137 | 96.4789 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 54.5815 | 78.4416 | 41.8514 | 67.3617 | 302 | 83 | 321 | 446 | 114 | 25.5605 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 78.2202 | 78.4416 | 78.0000 | 61.1973 | 302 | 83 | 273 | 77 | 55 | 71.4286 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 58.5125 | 78.4461 | 46.6568 | 31.7444 | 313 | 86 | 314 | 359 | 357 | 99.4429 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m0_e0 | * | 84.4218 | 78.4473 | 91.3813 | 92.4805 | 677 | 186 | 774 | 73 | 17 | 23.2877 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 82.4178 | 78.4483 | 86.8106 | 63.9896 | 364 | 100 | 362 | 55 | 35 | 63.6364 | |
| 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 | |