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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46001-46050 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.1406 | 89.3302 | 90.9658 | 70.1878 | 5735 | 685 | 5689 | 565 | 335 | 59.2920 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.1406 | 89.3302 | 90.9658 | 70.1878 | 5735 | 685 | 5689 | 565 | 335 | 59.2920 | |
| ghariani-varprowl | INDEL | D16_PLUS | * | homalt | 72.0773 | 58.8061 | 93.0841 | 70.1867 | 995 | 697 | 996 | 74 | 68 | 91.8919 | |
| ckim-dragen | INDEL | I16_PLUS | * | homalt | 97.0983 | 99.6797 | 94.6472 | 70.1850 | 1556 | 5 | 1556 | 88 | 85 | 96.5909 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e1 | homalt | 99.7335 | 99.5646 | 99.9029 | 70.1838 | 4116 | 18 | 4116 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.4853 | 92.4528 | 60.9756 | 70.1818 | 49 | 4 | 50 | 32 | 22 | 68.7500 | |
| jpowers-varprowl | INDEL | D16_PLUS | * | homalt | 72.0589 | 58.7470 | 93.1712 | 70.1813 | 994 | 698 | 996 | 73 | 69 | 94.5205 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.6434 | 24.0260 | 32.5431 | 70.1799 | 148 | 468 | 151 | 313 | 312 | 99.6805 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | homalt | 99.0018 | 99.6454 | 98.3664 | 70.1757 | 1686 | 6 | 1686 | 28 | 20 | 71.4286 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.4534 | 76.4045 | 89.5425 | 70.1754 | 136 | 42 | 137 | 16 | 16 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l150_m2_e1 | het | 55.7873 | 38.9825 | 98.0593 | 70.1751 | 7938 | 12425 | 7933 | 157 | 5 | 3.1847 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.7270 | 98.3908 | 99.0654 | 70.1742 | 428 | 7 | 424 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.6349 | 98.9595 | 92.5264 | 70.1656 | 27390 | 288 | 27497 | 2221 | 284 | 12.7870 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | * | 99.4064 | 99.0334 | 99.7822 | 70.1626 | 16496 | 161 | 16496 | 36 | 17 | 47.2222 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 83.3333 | 71.4286 | 100.0000 | 70.1613 | 35 | 14 | 37 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4338 | 99.1525 | 99.7167 | 70.1606 | 351 | 3 | 352 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 76.6232 | 94.3503 | 64.5038 | 70.1595 | 167 | 10 | 169 | 93 | 88 | 94.6237 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.3982 | 98.8506 | 97.9499 | 70.1564 | 430 | 5 | 430 | 9 | 4 | 44.4444 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.1418 | 99.5624 | 98.7248 | 70.1554 | 910 | 4 | 929 | 12 | 1 | 8.3333 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7182 | 95.3340 | 98.1431 | 70.1548 | 1798 | 88 | 1797 | 34 | 22 | 64.7059 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.2099 | 94.9264 | 93.5043 | 70.1531 | 580 | 31 | 547 | 38 | 36 | 94.7368 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 60.4651 | 56.5217 | 65.0000 | 70.1493 | 13 | 10 | 13 | 7 | 6 | 85.7143 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1645 | 97.0494 | 97.2799 | 70.1462 | 3947 | 120 | 3934 | 110 | 98 | 89.0909 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 70.1454 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 70.1454 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.7246 | 98.3051 | 99.1477 | 70.1442 | 348 | 6 | 349 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4536 | 99.5624 | 99.3450 | 70.1434 | 910 | 4 | 910 | 6 | 0 | 0.0000 | |
| anovak-vg | INDEL | I6_15 | map_siren | homalt | 64.5973 | 83.3333 | 52.7397 | 70.1431 | 75 | 15 | 77 | 69 | 60 | 86.9565 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | * | 83.4211 | 89.3066 | 78.2634 | 70.1430 | 21881 | 2620 | 21848 | 6068 | 1313 | 21.6381 | |
| ghariani-varprowl | SNP | * | map_l100_m1_e0 | * | 98.3728 | 99.0277 | 97.7266 | 70.1377 | 71699 | 704 | 71702 | 1668 | 318 | 19.0647 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 68.5442 | 93.9928 | 53.9399 | 70.1347 | 28649 | 1831 | 28668 | 24480 | 22479 | 91.8260 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 68.5442 | 93.9928 | 53.9399 | 70.1347 | 28649 | 1831 | 28668 | 24480 | 22479 | 91.8260 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0769 | 97.6077 | 98.5507 | 70.1299 | 204 | 5 | 204 | 3 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m0_e0 | homalt | 99.7971 | 99.6398 | 99.9548 | 70.1295 | 2213 | 8 | 2213 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 58.3686 | 63.6364 | 53.9062 | 70.1284 | 133 | 76 | 138 | 118 | 36 | 30.5085 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 71.1805 | 93.4426 | 57.4850 | 70.1252 | 114 | 8 | 288 | 213 | 154 | 72.3005 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5885 | 99.1803 | 100.0000 | 70.1235 | 121 | 1 | 121 | 0 | 0 | ||
| jlack-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.7279 | 97.8388 | 99.6332 | 70.1233 | 2173 | 48 | 2173 | 8 | 5 | 62.5000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.9438 | 90.8602 | 99.4118 | 70.1230 | 169 | 17 | 169 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.9438 | 90.8602 | 99.4118 | 70.1230 | 169 | 17 | 169 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.8217 | 92.4731 | 99.4220 | 70.1209 | 172 | 14 | 172 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1046 | 97.0494 | 97.1598 | 70.1203 | 3947 | 120 | 3934 | 115 | 99 | 86.0870 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.9805 | 88.9241 | 99.6466 | 70.1162 | 281 | 35 | 282 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002complexvar | hetalt | 21.9016 | 12.5373 | 86.5385 | 70.1149 | 42 | 293 | 45 | 7 | 7 | 100.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | HG002complexvar | homalt | 99.0385 | 100.0000 | 98.0952 | 70.1139 | 309 | 0 | 309 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | het | 99.2207 | 99.5181 | 98.9251 | 70.1134 | 46672 | 226 | 46661 | 507 | 63 | 12.4260 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7849 | 95.2033 | 78.0622 | 70.1093 | 913 | 46 | 854 | 240 | 21 | 8.7500 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.2696 | 94.2821 | 98.3427 | 70.1080 | 2968 | 180 | 2967 | 50 | 2 | 4.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.8256 | 97.5251 | 96.1361 | 70.1065 | 17378 | 441 | 18561 | 746 | 415 | 55.6300 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e0 | * | 99.4065 | 99.0357 | 99.7800 | 70.1050 | 16330 | 159 | 16330 | 36 | 17 | 47.2222 | |