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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65401-65450 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.3107 | 93.3144 | 95.3285 | 30.1733 | 656 | 47 | 653 | 32 | 31 | 96.8750 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.2328 | 95.1446 | 99.4146 | 48.4901 | 921 | 47 | 11209 | 66 | 66 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m2_e1 | het | 77.5330 | 65.1852 | 95.6522 | 95.8633 | 88 | 47 | 88 | 4 | 1 | 25.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l125_m2_e1 | * | 77.5120 | 63.2812 | 100.0000 | 95.9008 | 81 | 47 | 81 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 64.1221 | 47.1910 | 100.0000 | 79.8122 | 42 | 47 | 43 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 0.0000 | 2.0833 | 0.0000 | 0.0000 | 1 | 47 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1285 | 98.7253 | 99.5351 | 51.6909 | 3640 | 47 | 3640 | 17 | 14 | 82.3529 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.0781 | 87.0523 | 100.0000 | 43.3735 | 316 | 47 | 329 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 44.9870 | 55.6604 | 37.7483 | 73.6014 | 59 | 47 | 57 | 94 | 93 | 98.9362 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3094 | 97.8017 | 98.8224 | 46.8984 | 2091 | 47 | 2098 | 25 | 1 | 4.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.6072 | 95.6801 | 99.6135 | 53.2309 | 1041 | 47 | 1031 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | HG002complexvar | het | 97.1408 | 95.7543 | 98.5680 | 65.7400 | 1060 | 47 | 826 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1826 | 98.7253 | 99.6441 | 48.7010 | 3640 | 47 | 3640 | 13 | 10 | 76.9231 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m1_e0 | * | 97.9147 | 96.4899 | 99.3822 | 78.5098 | 1292 | 47 | 1287 | 8 | 3 | 37.5000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1777 | 91.1321 | 99.5992 | 56.5331 | 483 | 47 | 497 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | * | 96.7585 | 94.6712 | 98.9399 | 82.0279 | 835 | 47 | 840 | 9 | 1 | 11.1111 | |
| jpowers-varprowl | INDEL | D16_PLUS | map_l100_m2_e1 | * | 58.3125 | 51.5464 | 67.1233 | 96.0879 | 50 | 47 | 49 | 24 | 21 | 87.5000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 47 | 0 | 0 | 0 | |||
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8378 | 99.7231 | 99.9528 | 67.2930 | 16928 | 47 | 16928 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8378 | 99.7231 | 99.9528 | 67.2930 | 16928 | 47 | 16928 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | * | map_l125_m0_e0 | homalt | 99.5817 | 99.2998 | 99.8651 | 65.5375 | 6665 | 47 | 6665 | 9 | 9 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.2608 | 90.4082 | 65.9420 | 80.5543 | 443 | 47 | 273 | 141 | 138 | 97.8723 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5459 | 99.3019 | 99.7911 | 49.8616 | 6686 | 47 | 6688 | 14 | 9 | 64.2857 | |
| egarrison-hhga | INDEL | D1_5 | map_siren | * | 98.6263 | 98.6682 | 98.5844 | 80.4104 | 3482 | 47 | 3482 | 50 | 22 | 44.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 68.0272 | 51.5464 | 100.0000 | 30.4348 | 50 | 47 | 48 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | het | 96.7178 | 96.4794 | 96.9573 | 84.9956 | 1288 | 47 | 1657 | 52 | 30 | 57.6923 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5450 | 99.5769 | 99.5131 | 63.1488 | 11061 | 47 | 11036 | 54 | 17 | 31.4815 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4572 | 99.2298 | 99.6856 | 78.8294 | 6055 | 47 | 6025 | 19 | 12 | 63.1579 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m2_e1 | * | 97.7178 | 96.6308 | 98.8296 | 88.4427 | 1348 | 47 | 1351 | 16 | 4 | 25.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 82.8549 | 77.7251 | 88.7097 | 61.5702 | 164 | 47 | 165 | 21 | 20 | 95.2381 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.3899 | 73.5955 | 93.5714 | 59.8854 | 131 | 47 | 131 | 9 | 3 | 33.3333 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5314 | 99.8673 | 99.1977 | 62.4958 | 35372 | 47 | 35361 | 286 | 20 | 6.9930 | |
| dgrover-gatk | SNP | * | map_l150_m0_e0 | homalt | 99.3242 | 98.8506 | 99.8025 | 74.1808 | 4042 | 47 | 4042 | 8 | 6 | 75.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7788 | 99.5931 | 99.9652 | 63.6860 | 11505 | 47 | 11505 | 4 | 3 | 75.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7788 | 99.5931 | 99.9652 | 63.6860 | 11505 | 47 | 11505 | 4 | 3 | 75.0000 | |
| dgrover-gatk | SNP | ti | map_l250_m1_e0 | het | 98.2014 | 98.4164 | 97.9873 | 91.3429 | 2921 | 47 | 2921 | 60 | 16 | 26.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e0 | het | 98.3591 | 98.5556 | 98.1635 | 91.6192 | 3207 | 47 | 3207 | 60 | 16 | 26.6667 | |
| dgrover-gatk | SNP | tv | map_l125_m0_e0 | het | 98.4509 | 98.9321 | 97.9743 | 81.0960 | 4354 | 47 | 4353 | 90 | 15 | 16.6667 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e0 | het | 97.5246 | 97.9627 | 97.0903 | 84.4521 | 2260 | 47 | 2269 | 68 | 29 | 42.6471 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2442 | 98.7151 | 99.7789 | 49.7012 | 3611 | 47 | 3611 | 8 | 4 | 50.0000 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e0 | * | 97.3214 | 96.6619 | 97.9899 | 88.6072 | 1361 | 47 | 1365 | 28 | 4 | 14.2857 | |
| ndellapenna-hhga | SNP | tv | map_siren | homalt | 99.8287 | 99.7274 | 99.9303 | 55.1755 | 17193 | 47 | 17193 | 12 | 10 | 83.3333 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 83.6237 | 71.8563 | 100.0000 | 63.5714 | 120 | 47 | 51 | 0 | 0 | ||
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 88.9612 | 90.4472 | 87.5233 | 61.4224 | 445 | 47 | 470 | 67 | 49 | 73.1343 | |
| qzeng-custom | INDEL | * | map_l250_m1_e0 | homalt | 71.3120 | 56.8807 | 95.5556 | 96.3444 | 62 | 47 | 86 | 4 | 1 | 25.0000 | |
| qzeng-custom | INDEL | * | map_l250_m2_e0 | homalt | 73.1839 | 59.1304 | 96.0000 | 96.3262 | 68 | 47 | 96 | 4 | 1 | 25.0000 | |
| qzeng-custom | INDEL | * | map_l250_m2_e1 | homalt | 73.4760 | 59.4828 | 96.0784 | 96.3480 | 69 | 47 | 98 | 4 | 1 | 25.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 89.5255 | 86.7232 | 92.5150 | 65.8836 | 307 | 47 | 309 | 25 | 25 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.9886 | 98.1155 | 99.8774 | 55.5677 | 2447 | 47 | 2443 | 3 | 1 | 33.3333 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.5636 | 99.5347 | 95.6691 | 57.4517 | 10055 | 47 | 10073 | 456 | 383 | 83.9912 | |