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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26051-26100 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.6383 | 94.3878 | 96.9223 | 68.8174 | 2035 | 121 | 2047 | 65 | 13 | 20.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.6376 | 93.6473 | 97.7143 | 85.3434 | 855 | 58 | 855 | 20 | 10 | 50.0000 | |
| astatham-gatk | INDEL | I6_15 | map_siren | * | 95.6376 | 93.4426 | 97.9381 | 85.2956 | 285 | 20 | 285 | 6 | 4 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.6376 | 96.4467 | 94.8419 | 58.7509 | 1140 | 42 | 1140 | 62 | 60 | 96.7742 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.6374 | 95.8769 | 95.3990 | 63.4546 | 17417 | 749 | 17417 | 840 | 435 | 51.7857 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.6374 | 95.8769 | 95.3990 | 63.4546 | 17417 | 749 | 17417 | 840 | 435 | 51.7857 | |
| asubramanian-gatk | INDEL | * | * | hetalt | 95.6373 | 92.5665 | 98.9188 | 59.3274 | 23361 | 1876 | 23605 | 258 | 236 | 91.4729 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.6365 | 93.2331 | 98.1670 | 73.3875 | 124 | 9 | 482 | 9 | 6 | 66.6667 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | * | 95.6364 | 95.6364 | 95.6364 | 89.5556 | 263 | 12 | 263 | 12 | 2 | 16.6667 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e1 | het | 95.6362 | 96.3722 | 94.9113 | 82.2863 | 1222 | 46 | 1231 | 66 | 8 | 12.1212 | |
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.6349 | 98.9595 | 92.5264 | 70.1656 | 27390 | 288 | 27497 | 2221 | 284 | 12.7870 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m0_e0 | homalt | 95.6349 | 93.4109 | 97.9675 | 78.7565 | 241 | 17 | 241 | 5 | 2 | 40.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6348 | 93.9058 | 97.4286 | 67.0123 | 339 | 22 | 341 | 9 | 7 | 77.7778 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | homalt | 95.6347 | 93.3159 | 98.0716 | 83.8343 | 712 | 51 | 712 | 14 | 5 | 35.7143 | |
| gduggal-bwafb | INDEL | * | map_l150_m1_e0 | het | 95.6334 | 94.2690 | 97.0379 | 88.0521 | 806 | 49 | 819 | 25 | 1 | 4.0000 | |
| gduggal-bwavard | INDEL | * | map_siren | homalt | 95.6313 | 91.9397 | 99.6318 | 70.4973 | 2441 | 214 | 2435 | 9 | 6 | 66.6667 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m0_e0 | het | 95.6311 | 97.5248 | 93.8095 | 92.1023 | 197 | 5 | 197 | 13 | 1 | 7.6923 | |
| ckim-dragen | INDEL | * | map_l100_m0_e0 | het | 95.6303 | 96.7679 | 94.5192 | 88.5902 | 988 | 33 | 983 | 57 | 4 | 7.0175 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6301 | 95.4887 | 95.7720 | 73.1847 | 2032 | 96 | 2016 | 89 | 78 | 87.6404 | |
| ckim-gatk | INDEL | I1_5 | * | hetalt | 95.6301 | 91.6749 | 99.9419 | 60.1212 | 10263 | 932 | 10325 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6298 | 98.9362 | 92.5373 | 61.3647 | 744 | 8 | 744 | 60 | 60 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.6289 | 95.1389 | 96.1240 | 80.6306 | 274 | 14 | 248 | 10 | 7 | 70.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.6283 | 95.0913 | 96.1713 | 57.6972 | 833 | 43 | 2537 | 101 | 95 | 94.0594 | |
| cchapple-custom | SNP | tv | map_l125_m2_e1 | het | 95.6281 | 97.6500 | 93.6882 | 79.3490 | 10305 | 248 | 10331 | 696 | 117 | 16.8103 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6272 | 95.0801 | 96.1806 | 60.9315 | 1662 | 86 | 1662 | 66 | 49 | 74.2424 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6267 | 91.7101 | 99.8927 | 27.2780 | 3695 | 334 | 3723 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | D1_5 | * | * | 95.6258 | 94.7617 | 96.5059 | 56.5047 | 139058 | 7687 | 139038 | 5034 | 4747 | 94.2988 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.6256 | 99.8294 | 91.7615 | 43.4184 | 4681 | 8 | 4678 | 420 | 1 | 0.2381 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.6246 | 94.1088 | 97.1901 | 77.6009 | 623 | 39 | 588 | 17 | 5 | 29.4118 | |
| asubramanian-gatk | INDEL | * | segdup | hetalt | 95.6238 | 92.3077 | 99.1870 | 94.8211 | 120 | 10 | 122 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | * | 95.6235 | 92.5950 | 98.8568 | 63.0617 | 11329 | 906 | 11328 | 131 | 126 | 96.1832 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | het | 95.6234 | 94.9676 | 96.2882 | 93.0044 | 1321 | 70 | 1323 | 51 | 5 | 9.8039 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.6226 | 93.3223 | 98.0392 | 55.3589 | 2250 | 161 | 2250 | 45 | 42 | 93.3333 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.6219 | 95.5496 | 95.6944 | 76.1461 | 29757 | 1386 | 29827 | 1342 | 182 | 13.5618 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.6219 | 95.5496 | 95.6944 | 76.1461 | 29757 | 1386 | 29827 | 1342 | 182 | 13.5618 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | hetalt | 95.6218 | 93.1712 | 98.2048 | 39.4536 | 1801 | 132 | 2024 | 37 | 31 | 83.7838 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m0_e0 | het | 95.6215 | 97.1235 | 94.1653 | 84.4545 | 574 | 17 | 581 | 36 | 4 | 11.1111 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.6210 | 97.3818 | 93.9229 | 89.2161 | 2306 | 62 | 2411 | 156 | 50 | 32.0513 | |
| jli-custom | INDEL | * | HG002compoundhet | * | 95.6209 | 94.1822 | 97.1042 | 61.3856 | 28217 | 1743 | 28100 | 838 | 804 | 95.9427 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | * | 95.6186 | 97.4255 | 93.8776 | 91.4090 | 7682 | 203 | 7682 | 501 | 87 | 17.3653 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.6186 | 98.0736 | 93.2836 | 55.1652 | 560 | 11 | 1000 | 72 | 71 | 98.6111 | |
| cchapple-custom | INDEL | C1_5 | HG002compoundhet | * | 95.6183 | 100.0000 | 91.6045 | 83.2080 | 1 | 0 | 491 | 45 | 7 | 15.5556 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6173 | 93.5146 | 97.8166 | 73.7084 | 447 | 31 | 448 | 10 | 10 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_l250_m0_e0 | homalt | 95.6171 | 92.6606 | 98.7685 | 92.5912 | 404 | 32 | 401 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.6166 | 92.7056 | 98.7164 | 31.4832 | 12760 | 1004 | 13612 | 177 | 161 | 90.9605 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m0_e0 | het | 95.6165 | 96.0123 | 95.2239 | 86.1513 | 313 | 13 | 319 | 16 | 3 | 18.7500 | |
| jpowers-varprowl | INDEL | D1_5 | HG002complexvar | het | 95.6155 | 96.8360 | 94.4254 | 57.0236 | 20108 | 657 | 20072 | 1185 | 1127 | 95.1055 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m0_e0 | het | 95.6145 | 92.4528 | 99.0000 | 93.7422 | 98 | 8 | 99 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.6141 | 91.5968 | 100.0000 | 29.3704 | 4371 | 401 | 4420 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I1_5 | map_l250_m2_e1 | * | 95.6140 | 95.6140 | 95.6140 | 96.1745 | 109 | 5 | 109 | 5 | 2 | 40.0000 | |