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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17901-17950 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2516 | 98.6776 | 88.3913 | 75.0612 | 4701 | 63 | 4500 | 591 | 44 | 7.4450 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8464 | 98.6772 | 97.0296 | 69.0281 | 19320 | 259 | 19501 | 597 | 25 | 4.1876 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8464 | 98.6772 | 97.0296 | 69.0281 | 19320 | 259 | 19501 | 597 | 25 | 4.1876 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1729 | 98.6761 | 99.6748 | 69.3950 | 32796 | 440 | 42603 | 139 | 118 | 84.8921 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.2515 | 98.6760 | 99.8336 | 71.5436 | 2385 | 32 | 2400 | 4 | 4 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.3336 | 98.6760 | 100.0000 | 74.6486 | 2385 | 32 | 2381 | 0 | 0 | ||
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0040 | 98.6760 | 99.3342 | 81.0100 | 2385 | 32 | 2387 | 16 | 10 | 62.5000 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.1182 | 98.6758 | 99.5645 | 45.6045 | 6185 | 83 | 6173 | 27 | 13 | 48.1481 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.5662 | 98.6750 | 98.4576 | 87.8962 | 2681 | 36 | 2681 | 42 | 24 | 57.1429 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7950 | 98.6747 | 98.9157 | 86.7327 | 819 | 11 | 821 | 9 | 2 | 22.2222 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7342 | 98.6747 | 98.7937 | 86.0391 | 819 | 11 | 819 | 10 | 2 | 20.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.8533 | 98.6747 | 99.0326 | 85.4529 | 819 | 11 | 819 | 8 | 1 | 12.5000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.2269 | 98.6744 | 99.7855 | 71.4089 | 1861 | 25 | 1861 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | homalt | 99.1768 | 98.6739 | 99.6848 | 64.1086 | 3795 | 51 | 3795 | 12 | 10 | 83.3333 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | * | 96.1925 | 98.6739 | 93.8329 | 83.2384 | 20240 | 272 | 20236 | 1330 | 126 | 9.4737 | |
| jlack-gatk | INDEL | * | map_l100_m2_e1 | homalt | 98.7114 | 98.6729 | 98.7500 | 83.9418 | 1264 | 17 | 1264 | 16 | 8 | 50.0000 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | * | 94.3885 | 98.6712 | 90.4622 | 83.2378 | 10767 | 145 | 10765 | 1135 | 67 | 5.9031 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.5988 | 98.6711 | 89.0226 | 42.7218 | 594 | 8 | 592 | 73 | 71 | 97.2603 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9394 | 98.6710 | 99.2092 | 50.5195 | 3638 | 49 | 3638 | 29 | 26 | 89.6552 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 81.7047 | 98.6709 | 69.7171 | 59.9362 | 1559 | 21 | 1577 | 685 | 12 | 1.7518 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8948 | 98.6708 | 99.1198 | 73.7421 | 19598 | 264 | 19594 | 174 | 146 | 83.9080 | |
| jlack-gatk | INDEL | D16_PLUS | * | het | 95.4976 | 98.6705 | 92.5225 | 78.1303 | 3117 | 42 | 2883 | 233 | 133 | 57.0815 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.2224 | 98.6702 | 93.8931 | 48.2213 | 742 | 10 | 738 | 48 | 41 | 85.4167 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2864 | 98.6702 | 99.9102 | 42.2199 | 1113 | 15 | 1113 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | SNP | tv | map_siren | * | 98.2058 | 98.6697 | 97.7461 | 64.5313 | 45319 | 611 | 45320 | 1045 | 278 | 26.6029 | |
| mlin-fermikit | SNP | * | segdup | homalt | 98.6182 | 98.6689 | 98.5676 | 86.0366 | 10600 | 143 | 10597 | 154 | 135 | 87.6623 | |
| egarrison-hhga | INDEL | D1_5 | map_siren | * | 98.6263 | 98.6682 | 98.5844 | 80.4104 | 3482 | 47 | 3482 | 50 | 22 | 44.0000 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | * | 99.2263 | 98.6673 | 99.7916 | 56.2116 | 73741 | 996 | 73738 | 154 | 24 | 15.5844 | |
| astatham-gatk | SNP | ti | HG002compoundhet | * | 99.2746 | 98.6669 | 99.8899 | 35.7263 | 17245 | 233 | 17243 | 19 | 18 | 94.7368 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1674 | 98.6667 | 99.6732 | 58.9400 | 1036 | 14 | 1220 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0890 | 98.6667 | 99.5150 | 57.5021 | 1036 | 14 | 1026 | 5 | 3 | 60.0000 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | * | 95.5864 | 98.6663 | 92.6930 | 78.0628 | 32403 | 438 | 32399 | 2554 | 207 | 8.1049 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1370 | 98.6663 | 99.6121 | 66.8126 | 3847 | 52 | 3852 | 15 | 10 | 66.6667 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0330 | 98.6660 | 99.4027 | 68.8043 | 1997 | 27 | 1997 | 12 | 2 | 16.6667 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.7638 | 98.6660 | 89.3256 | 80.9138 | 1997 | 27 | 2000 | 239 | 13 | 5.4393 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.9653 | 98.6650 | 99.2674 | 69.4858 | 813 | 11 | 813 | 6 | 1 | 16.6667 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.7849 | 98.6650 | 98.9051 | 68.7452 | 813 | 11 | 813 | 9 | 4 | 44.4444 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3053 | 98.6647 | 99.9543 | 56.5280 | 10936 | 148 | 10933 | 5 | 2 | 40.0000 | |
| jpowers-varprowl | SNP | ti | map_l125_m2_e1 | homalt | 99.2450 | 98.6647 | 99.8322 | 70.9730 | 11305 | 153 | 11305 | 19 | 15 | 78.9474 | |
| gduggal-snapfb | SNP | * | map_siren | * | 98.4685 | 98.6644 | 98.2733 | 60.5270 | 144275 | 1953 | 144278 | 2535 | 801 | 31.5976 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e0 | * | 99.2429 | 98.6642 | 99.8285 | 55.8705 | 48307 | 654 | 48309 | 83 | 19 | 22.8916 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.5573 | 98.6641 | 94.5386 | 64.0244 | 517 | 7 | 502 | 29 | 9 | 31.0345 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.6641 | 98.6641 | 98.6641 | 63.0726 | 517 | 7 | 517 | 7 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.5485 | 98.6635 | 98.4338 | 60.5864 | 2510 | 34 | 2514 | 40 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.7368 | 98.6632 | 98.8105 | 55.8582 | 11145 | 151 | 11131 | 134 | 133 | 99.2537 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.2164 | 98.6631 | 95.8115 | 54.1966 | 369 | 5 | 366 | 16 | 6 | 37.5000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.4803 | 98.6631 | 96.3255 | 58.8553 | 369 | 5 | 367 | 14 | 8 | 57.1429 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.2670 | 98.6631 | 99.8783 | 77.1278 | 6568 | 89 | 6568 | 8 | 5 | 62.5000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m1_e0 | het | 87.4266 | 98.6622 | 78.4884 | 92.1449 | 295 | 4 | 405 | 111 | 38 | 34.2342 | |
| gduggal-snapfb | SNP | ti | map_siren | * | 98.5881 | 98.6618 | 98.5145 | 58.3905 | 99012 | 1343 | 99014 | 1493 | 523 | 35.0301 | |