PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52501-52550 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 32.6838 | 19.8128 | 93.2836 | 48.6590 | 127 | 514 | 125 | 9 | 4 | 44.4444 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 19.7704 | 0.0000 | 0.0000 | 155 | 629 | 0 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 32.9114 | 19.6970 | 100.0000 | 90.5109 | 13 | 53 | 13 | 0 | 0 | ||
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 17.8082 | 19.6970 | 16.2500 | 98.7063 | 13 | 53 | 13 | 67 | 2 | 2.9851 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 27.6970 | 19.6607 | 46.8447 | 68.8822 | 197 | 805 | 193 | 219 | 209 | 95.4338 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | het | 18.8426 | 19.6262 | 18.1193 | 66.4873 | 168 | 688 | 79 | 357 | 161 | 45.0980 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 26.8403 | 19.6198 | 42.4704 | 32.3024 | 258 | 1057 | 251 | 340 | 290 | 85.2941 | |
| ckim-isaac | INDEL | D16_PLUS | map_l100_m2_e1 | het | 29.5567 | 19.6078 | 60.0000 | 94.2085 | 10 | 41 | 9 | 6 | 3 | 50.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 20.9302 | 19.5652 | 22.5000 | 62.6168 | 9 | 37 | 9 | 31 | 31 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 32.7273 | 19.5652 | 100.0000 | 62.2222 | 18 | 74 | 17 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 21.4286 | 19.5652 | 23.6842 | 60.8247 | 9 | 37 | 9 | 29 | 29 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 31.7757 | 19.5402 | 85.0000 | 99.9795 | 17 | 70 | 17 | 3 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 24.8564 | 19.5402 | 34.1463 | 81.7778 | 17 | 70 | 14 | 27 | 16 | 59.2593 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 31.6497 | 19.5122 | 83.7398 | 62.9518 | 48 | 198 | 103 | 20 | 20 | 100.0000 | |
| asubramanian-gatk | SNP | * | map_l150_m1_e0 | homalt | 32.6455 | 19.5068 | 100.0000 | 91.9371 | 2199 | 9074 | 2199 | 0 | 0 | ||
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 28.1655 | 19.4631 | 50.9434 | 80.0000 | 29 | 120 | 27 | 26 | 21 | 80.7692 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 27.6134 | 19.4444 | 47.6190 | 91.1579 | 21 | 87 | 20 | 22 | 11 | 50.0000 | |
| asubramanian-gatk | SNP | tv | map_l150_m0_e0 | het | 32.4897 | 19.4161 | 99.4595 | 97.4792 | 552 | 2291 | 552 | 3 | 1 | 33.3333 | |
| gduggal-snapvard | INDEL | I6_15 | HG002compoundhet | homalt | 31.1688 | 19.3548 | 80.0000 | 52.3810 | 6 | 25 | 8 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 27.4286 | 19.3548 | 47.0588 | 86.4000 | 12 | 50 | 8 | 9 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 19.3483 | 0.0000 | 0.0000 | 95 | 396 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l250_m1_e0 | het | 32.3296 | 19.3060 | 99.3506 | 98.5655 | 918 | 3837 | 918 | 6 | 1 | 16.6667 | |
| ckim-vqsr | SNP | * | map_l150_m0_e0 | homalt | 32.3149 | 19.2712 | 100.0000 | 93.7742 | 788 | 3301 | 788 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l250_m0_e0 | * | 32.2936 | 19.2701 | 99.6226 | 98.9715 | 264 | 1106 | 264 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | map_l100_m1_e0 | * | 32.2581 | 19.2308 | 100.0000 | 96.2406 | 5 | 21 | 5 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | map_l100_m2_e0 | * | 32.2581 | 19.2308 | 100.0000 | 96.7949 | 5 | 21 | 5 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | map_l100_m2_e1 | * | 32.2581 | 19.2308 | 100.0000 | 96.8354 | 5 | 21 | 5 | 0 | 0 | ||
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.7778 | 19.2308 | 50.0000 | 95.0739 | 5 | 21 | 5 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D16_PLUS | map_siren | het | 29.1262 | 19.2308 | 60.0000 | 92.2840 | 15 | 63 | 15 | 10 | 5 | 50.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 26.6350 | 19.2090 | 43.4211 | 75.9494 | 34 | 143 | 33 | 43 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 19.1677 | 0.0000 | 0.0000 | 152 | 641 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 27.3141 | 19.1489 | 47.6190 | 61.1111 | 9 | 38 | 10 | 11 | 10 | 90.9091 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e1 | * | 32.0765 | 19.1186 | 99.5437 | 98.3572 | 1527 | 6460 | 1527 | 7 | 1 | 14.2857 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 29.5150 | 19.1176 | 64.7059 | 79.0123 | 13 | 55 | 11 | 6 | 2 | 33.3333 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 32.0988 | 19.1176 | 100.0000 | 99.4775 | 13 | 55 | 13 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l250_m1_e0 | * | 32.0381 | 19.0871 | 99.6579 | 98.2478 | 874 | 3705 | 874 | 3 | 1 | 33.3333 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 22.8209 | 19.0713 | 28.4058 | 74.7623 | 115 | 488 | 98 | 247 | 3 | 1.2146 | |
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | * | 32.0231 | 19.0688 | 99.8668 | 96.6434 | 1499 | 6362 | 1499 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | * | map_l150_m1_e0 | hetalt | 30.3797 | 19.0476 | 75.0000 | 99.4778 | 4 | 17 | 3 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e0 | hetalt | 30.3797 | 19.0476 | 75.0000 | 99.5338 | 4 | 17 | 3 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 29.6296 | 19.0476 | 66.6667 | 99.9901 | 4 | 17 | 4 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e0 | * | 31.9242 | 19.0108 | 99.5352 | 98.3542 | 1499 | 6386 | 1499 | 7 | 1 | 14.2857 | |
| ciseli-custom | INDEL | I6_15 | map_l100_m2_e0 | * | 29.5302 | 18.9655 | 66.6667 | 89.9083 | 22 | 94 | 22 | 11 | 10 | 90.9091 | |
| ciseli-custom | INDEL | I6_15 | map_l100_m2_e1 | * | 29.5302 | 18.9655 | 66.6667 | 90.0000 | 22 | 94 | 22 | 11 | 10 | 90.9091 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.2975 | 18.9591 | 48.7288 | 61.9968 | 51 | 218 | 230 | 242 | 193 | 79.7521 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 30.1911 | 18.8995 | 75.0000 | 65.9016 | 79 | 339 | 78 | 26 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 28.2517 | 18.8679 | 56.2044 | 48.1061 | 20 | 86 | 77 | 60 | 60 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 19.2946 | 18.8525 | 19.7581 | 78.5095 | 92 | 396 | 49 | 199 | 5 | 2.5126 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 30.4360 | 18.8406 | 79.1469 | 74.6699 | 169 | 728 | 167 | 44 | 35 | 79.5455 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 22.1585 | 18.8343 | 26.9076 | 54.2967 | 740 | 3189 | 737 | 2002 | 1995 | 99.6503 | |