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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69451-69500 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | D1_5 | map_l250_m1_e0 | het | 83.9216 | 96.3964 | 74.3056 | 96.7814 | 107 | 4 | 107 | 37 | 3 | 8.1081 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m0_e0 | * | 82.2615 | 77.8547 | 87.1972 | 95.7884 | 225 | 64 | 252 | 37 | 10 | 27.0270 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 40.4040 | 47.6190 | 35.0877 | 98.8711 | 20 | 22 | 20 | 37 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 65.4311 | 59.8361 | 72.1805 | 46.5863 | 73 | 49 | 96 | 37 | 37 | 100.0000 | |
| gduggal-snapfb | SNP | * | HG002compoundhet | hetalt | 97.7828 | 99.7680 | 95.8751 | 27.4859 | 860 | 2 | 860 | 37 | 8 | 21.6216 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 75.0000 | 0 | 0 | 0 | 37 | 0 | 0.0000 | ||
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.4911 | 99.5894 | 99.3930 | 57.8569 | 6063 | 25 | 6059 | 37 | 15 | 40.5405 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e0 | homalt | 98.4558 | 97.1544 | 99.7924 | 69.0150 | 17788 | 521 | 17789 | 37 | 21 | 56.7568 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e1 | homalt | 98.4714 | 97.1829 | 99.7946 | 68.9893 | 17973 | 521 | 17974 | 37 | 21 | 56.7568 | |
| gduggal-snapfb | SNP | tv | HG002compoundhet | hetalt | 97.7828 | 99.7680 | 95.8751 | 27.4859 | 860 | 2 | 860 | 37 | 8 | 21.6216 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 75.0000 | 0 | 0 | 0 | 37 | 0 | 0.0000 | ||
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 49.8073 | 51.0638 | 48.6111 | 53.5484 | 24 | 23 | 35 | 37 | 30 | 81.0811 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 67.2129 | 61.2360 | 74.4828 | 76.8000 | 109 | 69 | 108 | 37 | 37 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.6210 | 61.1111 | 78.2353 | 64.0592 | 132 | 84 | 133 | 37 | 35 | 94.5946 | |
| gduggal-snapvard | INDEL | D1_5 | func_cds | * | 87.5742 | 91.8239 | 83.7004 | 42.8212 | 146 | 13 | 190 | 37 | 33 | 89.1892 | |
| gduggal-snapvard | INDEL | D1_5 | func_cds | het | 87.2852 | 100.0000 | 77.4390 | 47.4359 | 85 | 0 | 127 | 37 | 33 | 89.1892 | |
| eyeh-varpipe | SNP | ti | map_l250_m0_e0 | het | 97.4777 | 98.9293 | 96.0680 | 94.6040 | 924 | 10 | 904 | 37 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m1_e0 | het | 93.2578 | 98.3278 | 88.6850 | 92.8163 | 294 | 5 | 290 | 37 | 13 | 35.1351 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e0 | het | 93.4675 | 98.3819 | 89.0208 | 93.4867 | 304 | 5 | 300 | 37 | 13 | 35.1351 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 64.7519 | 58.7097 | 72.1805 | 82.7048 | 91 | 64 | 96 | 37 | 36 | 97.2973 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 73.1459 | 90.3226 | 61.4583 | 85.1163 | 56 | 6 | 59 | 37 | 36 | 97.2973 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 67.8492 | 81.8182 | 57.9545 | 95.9781 | 54 | 12 | 51 | 37 | 7 | 18.9189 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.6782 | 97.9861 | 97.3722 | 73.2523 | 1411 | 29 | 1371 | 37 | 5 | 13.5135 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 48.7099 | 38.0000 | 67.8261 | 54.3651 | 19 | 31 | 78 | 37 | 9 | 24.3243 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.7307 | 90.6437 | 97.0353 | 73.3675 | 1211 | 125 | 1211 | 37 | 3 | 8.1081 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.5948 | 89.9415 | 95.4094 | 77.7594 | 769 | 86 | 769 | 37 | 3 | 8.1081 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.1219 | 73.6301 | 98.1006 | 47.7187 | 645 | 231 | 1911 | 37 | 37 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 90.6525 | 87.0027 | 94.6221 | 51.2057 | 984 | 147 | 651 | 37 | 36 | 97.2973 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 67.4105 | 51.3337 | 98.1491 | 56.8902 | 1963 | 1861 | 1962 | 37 | 36 | 97.2973 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 62.3378 | 47.0343 | 92.4025 | 85.6385 | 452 | 509 | 450 | 37 | 14 | 37.8378 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 59.7826 | 94.1289 | 0 | 0 | 55 | 37 | 4 | 10.8108 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 57.9545 | 93.8761 | 0 | 0 | 51 | 37 | 4 | 10.8108 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 83.2248 | 80.8271 | 85.7692 | 82.1796 | 215 | 51 | 223 | 37 | 34 | 91.8919 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 89.3757 | 99.3548 | 81.2183 | 83.8259 | 154 | 1 | 160 | 37 | 34 | 91.8919 | |
| eyeh-varpipe | INDEL | D1_5 | map_siren | het | 98.6360 | 98.8142 | 98.4583 | 78.5963 | 2250 | 27 | 2363 | 37 | 14 | 37.8378 | |
| eyeh-varpipe | INDEL | D6_15 | segdup | * | 76.3001 | 73.2984 | 79.5580 | 91.7314 | 140 | 51 | 144 | 37 | 36 | 97.2973 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.7316 | 95.9538 | 91.6100 | 65.6542 | 332 | 14 | 404 | 37 | 20 | 54.0541 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.7720 | 98.3536 | 99.1941 | 45.0969 | 4540 | 76 | 4554 | 37 | 1 | 2.7027 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.4234 | 99.3750 | 97.4898 | 76.6883 | 1431 | 9 | 1437 | 37 | 7 | 18.9189 | |
| ltrigg-rtg1 | SNP | * | map_l125_m0_e0 | het | 97.9634 | 96.2887 | 99.6974 | 60.6999 | 12194 | 470 | 12192 | 37 | 6 | 16.2162 | |
| ltrigg-rtg1 | SNP | * | map_l150_m0_e0 | * | 98.1003 | 96.5675 | 99.6825 | 69.8517 | 11619 | 413 | 11615 | 37 | 15 | 40.5405 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m1_e0 | * | 98.9175 | 98.0418 | 99.8089 | 66.8010 | 19326 | 386 | 19329 | 37 | 16 | 43.2432 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m1_e0 | * | 99.1139 | 98.4703 | 99.7659 | 61.6627 | 15771 | 245 | 15771 | 37 | 9 | 24.3243 | |
| ltrigg-rtg2 | INDEL | * | HG002complexvar | homalt | 99.4106 | 98.9640 | 99.8613 | 51.7784 | 26746 | 280 | 26631 | 37 | 27 | 72.9730 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7103 | 96.0354 | 99.4447 | 23.8949 | 6613 | 273 | 6626 | 37 | 36 | 97.2973 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.1637 | 81.3486 | 93.8742 | 45.8781 | 567 | 130 | 567 | 37 | 37 | 100.0000 | |
| jli-custom | INDEL | D6_15 | HG002complexvar | hetalt | 94.3987 | 92.4975 | 96.3796 | 46.9642 | 937 | 76 | 985 | 37 | 36 | 97.2973 | |
| jli-custom | INDEL | I1_5 | HG002complexvar | * | 99.4264 | 98.9689 | 99.8882 | 55.8919 | 33019 | 344 | 33052 | 37 | 27 | 72.9730 | |
| jpowers-varprowl | INDEL | * | map_siren | homalt | 94.9463 | 91.6384 | 98.5020 | 74.3563 | 2433 | 222 | 2433 | 37 | 25 | 67.5676 | |
| 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 | |