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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24851-24900 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 52.1569 | 63.6364 | 44.1860 | 82.8000 | 42 | 24 | 38 | 48 | 24 | 50.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 0.0000 | 7.6923 | 0.0000 | 97.8022 | 2 | 24 | 0 | 2 | 1 | 50.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m0_e0 | het | 74.2268 | 60.0000 | 97.2973 | 96.7965 | 36 | 24 | 36 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 20.0000 | 11.1111 | 100.0000 | 97.3913 | 3 | 24 | 3 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 47.8261 | 31.4286 | 100.0000 | 96.1938 | 11 | 24 | 11 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | map_l125_m1_e0 | * | 70.7317 | 54.7170 | 100.0000 | 95.6652 | 29 | 24 | 29 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | map_l125_m2_e0 | * | 70.7317 | 54.7170 | 100.0000 | 96.1892 | 29 | 24 | 29 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | map_l125_m2_e1 | * | 70.7317 | 54.7170 | 100.0000 | 96.3057 | 29 | 24 | 29 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | func_cds | het | 99.3960 | 99.0967 | 99.6971 | 49.3090 | 2633 | 24 | 2633 | 8 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | * | map_l100_m0_e0 | homalt | 99.8121 | 99.7935 | 99.8307 | 65.9910 | 11596 | 24 | 11205 | 19 | 8 | 42.1053 | |
| eyeh-varpipe | SNP | * | map_l150_m1_e0 | homalt | 99.8338 | 99.7871 | 99.8804 | 73.5129 | 11249 | 24 | 10861 | 13 | 8 | 61.5385 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | homalt | 99.8398 | 99.7949 | 99.8849 | 75.5076 | 11675 | 24 | 11277 | 13 | 8 | 61.5385 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e1 | homalt | 99.8415 | 99.7971 | 99.8860 | 75.5645 | 11803 | 24 | 11393 | 13 | 8 | 61.5385 | |
| eyeh-varpipe | SNP | ti | map_l250_m1_e0 | het | 98.4913 | 99.1914 | 97.8011 | 90.9985 | 2944 | 24 | 2891 | 65 | 4 | 6.1539 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e0 | het | 98.6087 | 99.2624 | 97.9636 | 91.2085 | 3230 | 24 | 3175 | 66 | 4 | 6.0606 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e1 | het | 98.5825 | 99.2725 | 97.9021 | 91.2682 | 3275 | 24 | 3220 | 69 | 4 | 5.7971 | |
| eyeh-varpipe | SNP | tv | map_l100_m0_e0 | het | 94.2875 | 99.6677 | 89.4585 | 75.0937 | 7198 | 24 | 7137 | 841 | 11 | 1.3080 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5845 | 96.1905 | 99.0196 | 62.5917 | 606 | 24 | 606 | 6 | 4 | 66.6667 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 88.9077 | 80.6452 | 99.0566 | 99.9183 | 100 | 24 | 105 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m0_e0 | het | 95.4873 | 92.9619 | 98.1538 | 84.2843 | 317 | 24 | 319 | 6 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_siren | hetalt | 94.4986 | 90.2834 | 99.1266 | 91.2895 | 223 | 24 | 227 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 7.1429 | 4.0000 | 33.3333 | 86.3636 | 1 | 24 | 1 | 2 | 1 | 50.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.5525 | 99.0160 | 98.0933 | 59.8338 | 2415 | 24 | 2418 | 47 | 12 | 25.5319 | |
| jpowers-varprowl | SNP | ti | map_l125_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 24 | 0 | 0 | 0 | |||
| jpowers-varprowl | SNP | ti | map_l125_m2_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 24 | 0 | 0 | 0 | |||
| jpowers-varprowl | SNP | ti | map_l125_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 24 | 0 | 0 | 0 | |||
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.2800 | 98.7275 | 99.8388 | 67.9580 | 1862 | 24 | 1858 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.1229 | 95.5140 | 98.7868 | 83.6312 | 511 | 24 | 570 | 7 | 7 | 100.0000 | |
| jpowers-varprowl | INDEL | * | func_cds | homalt | 94.1725 | 89.3805 | 99.5074 | 31.4189 | 202 | 24 | 202 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l125_m2_e1 | homalt | 96.1326 | 93.5484 | 98.8636 | 82.1138 | 348 | 24 | 348 | 4 | 1 | 25.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m1_e0 | het | 93.7564 | 95.0207 | 92.5253 | 90.0901 | 458 | 24 | 458 | 37 | 19 | 51.3514 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m2_e0 | het | 93.9597 | 95.3307 | 92.6276 | 90.5316 | 490 | 24 | 490 | 39 | 20 | 51.2821 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 91.9932 | 85.7143 | 99.2647 | 63.0435 | 144 | 24 | 135 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9133 | 99.8812 | 99.9455 | 56.3725 | 20175 | 24 | 20175 | 11 | 7 | 63.6364 | |
| jmaeng-gatk | INDEL | * | map_siren | homalt | 99.1343 | 99.0960 | 99.1726 | 81.5411 | 2631 | 24 | 2637 | 22 | 15 | 68.1818 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 82.2326 | 82.2222 | 82.2430 | 78.7698 | 111 | 24 | 88 | 19 | 18 | 94.7368 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002complexvar | hetalt | 95.8690 | 92.8358 | 99.1071 | 67.4419 | 311 | 24 | 333 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.1677 | 91.3978 | 99.2620 | 64.3890 | 255 | 24 | 269 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | func_cds | * | 99.4513 | 99.8678 | 99.0382 | 31.9360 | 18126 | 24 | 18123 | 176 | 1 | 0.5682 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8563 | 99.7624 | 99.9504 | 49.5168 | 10078 | 24 | 10078 | 5 | 5 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e0 | het | 94.7832 | 95.3307 | 94.2418 | 93.7274 | 490 | 24 | 491 | 30 | 3 | 10.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8789 | 99.1218 | 96.6667 | 63.6387 | 2709 | 24 | 2697 | 93 | 90 | 96.7742 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.2891 | 91.6084 | 99.2780 | 52.0761 | 262 | 24 | 275 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l150_m2_e1 | * | 96.5736 | 95.4802 | 97.6923 | 93.3153 | 507 | 24 | 508 | 12 | 2 | 16.6667 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9845 | 98.4426 | 99.5324 | 77.7099 | 1517 | 24 | 1490 | 7 | 2 | 28.5714 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.9506 | 73.9130 | 97.1429 | 57.8313 | 68 | 24 | 68 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.9998 | 98.8848 | 99.1150 | 44.5935 | 2128 | 24 | 2128 | 19 | 14 | 73.6842 | |
| egarrison-hhga | INDEL | * | map_l150_m1_e0 | het | 97.3128 | 97.1930 | 97.4329 | 89.1766 | 831 | 24 | 835 | 22 | 6 | 27.2727 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | het | 97.4639 | 97.3510 | 97.5771 | 89.7297 | 882 | 24 | 886 | 22 | 6 | 27.2727 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e1 | het | 97.5133 | 97.4026 | 97.6242 | 89.7600 | 900 | 24 | 904 | 22 | 6 | 27.2727 | |