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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40301-40350 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 65.3595 | 55.1783 | 80.1480 | 73.4881 | 650 | 528 | 650 | 161 | 115 | 71.4286 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 65.3614 | 61.2994 | 70.0000 | 68.2377 | 217 | 137 | 217 | 93 | 88 | 94.6237 | |
| egarrison-hhga | INDEL | D6_15 | HG002complexvar | hetalt | 65.3629 | 50.0494 | 94.1788 | 58.1739 | 507 | 506 | 453 | 28 | 24 | 85.7143 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m1_e0 | het | 65.3674 | 67.3913 | 63.4615 | 92.2619 | 31 | 15 | 33 | 19 | 8 | 42.1053 | |
| mlin-fermikit | SNP | * | map_l125_m1_e0 | homalt | 65.3755 | 57.2079 | 76.2637 | 52.9793 | 9671 | 7234 | 9671 | 3010 | 2851 | 94.7176 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e1 | * | 65.3788 | 49.4545 | 96.4286 | 84.2697 | 136 | 139 | 135 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 65.3789 | 96.5057 | 49.4344 | 75.2664 | 3038 | 110 | 3190 | 3263 | 93 | 2.8501 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 65.3856 | 51.5789 | 89.2857 | 85.3018 | 49 | 46 | 50 | 6 | 2 | 33.3333 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 65.3917 | 49.9065 | 94.8097 | 85.3076 | 267 | 268 | 274 | 15 | 10 | 66.6667 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 65.3933 | 98.2278 | 49.0105 | 39.1883 | 2328 | 42 | 2328 | 2422 | 2406 | 99.3394 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.3950 | 71.2167 | 60.4531 | 49.7479 | 3986 | 1611 | 5844 | 3823 | 2953 | 77.2430 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.4034 | 58.8863 | 73.5426 | 80.9801 | 28425 | 19846 | 32333 | 11632 | 1955 | 16.8071 | |
| mlin-fermikit | INDEL | * | map_l100_m0_e0 | * | 65.4035 | 54.7025 | 81.3093 | 79.7697 | 855 | 708 | 857 | 197 | 137 | 69.5431 | |
| ckim-isaac | INDEL | I6_15 | map_siren | het | 65.4206 | 48.9510 | 98.5915 | 87.8425 | 70 | 73 | 70 | 1 | 1 | 100.0000 | |
| 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-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 65.4441 | 60.5202 | 71.2401 | 29.6193 | 1047 | 683 | 1080 | 436 | 388 | 88.9908 | |
| jpowers-varprowl | INDEL | I6_15 | map_l100_m0_e0 | * | 65.4545 | 54.5455 | 81.8182 | 90.6780 | 18 | 15 | 18 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m0_e0 | homalt | 65.4719 | 48.6916 | 99.8996 | 84.7432 | 1991 | 2098 | 1991 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 65.4735 | 66.2226 | 64.7412 | 60.6352 | 12030 | 6136 | 13472 | 7337 | 6068 | 82.7041 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 65.4735 | 66.2226 | 64.7412 | 60.6352 | 12030 | 6136 | 13472 | 7337 | 6068 | 82.7041 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.5149 | 76.6385 | 57.2111 | 69.3456 | 1181 | 360 | 1198 | 896 | 886 | 98.8839 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 65.5538 | 64.1026 | 67.0722 | 60.4154 | 475 | 266 | 882 | 433 | 97 | 22.4018 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 65.5717 | 86.0759 | 52.9568 | 90.4618 | 1224 | 198 | 1200 | 1066 | 55 | 5.1595 | |
| anovak-vg | INDEL | D16_PLUS | map_l125_m2_e0 | * | 65.5738 | 55.5556 | 80.0000 | 91.3420 | 15 | 12 | 16 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | INDEL | * | map_l150_m2_e1 | homalt | 65.5738 | 48.7805 | 100.0000 | 94.1449 | 240 | 252 | 240 | 0 | 0 | ||
| ciseli-custom | INDEL | * | tech_badpromoters | homalt | 65.5738 | 60.6061 | 71.4286 | 50.0000 | 20 | 13 | 20 | 8 | 7 | 87.5000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 65.5889 | 49.3171 | 97.8852 | 70.8627 | 325 | 334 | 324 | 7 | 7 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 65.5889 | 49.3171 | 97.8852 | 70.8627 | 325 | 334 | 324 | 7 | 7 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e1 | * | 65.5947 | 59.6364 | 72.8758 | 83.1683 | 164 | 111 | 223 | 83 | 59 | 71.0843 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.6044 | 51.5250 | 90.2715 | 87.2106 | 794 | 747 | 798 | 86 | 3 | 3.4884 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 65.6064 | 54.0984 | 83.3333 | 66.0377 | 33 | 28 | 15 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | het | 65.6155 | 68.2464 | 63.1799 | 96.7945 | 144 | 67 | 151 | 88 | 29 | 32.9545 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 65.6250 | 58.3333 | 75.0000 | 80.1418 | 14 | 10 | 21 | 7 | 2 | 28.5714 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m1_e0 | * | 65.6309 | 53.5565 | 84.7345 | 81.1195 | 384 | 333 | 383 | 69 | 61 | 88.4058 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.6349 | 65.9236 | 65.3487 | 72.3679 | 828 | 428 | 909 | 482 | 71 | 14.7303 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 65.6393 | 56.0506 | 79.1857 | 70.3212 | 8731 | 6846 | 8480 | 2229 | 1542 | 69.1790 | |
| ckim-vqsr | SNP | * | map_l150_m1_e0 | * | 65.6433 | 49.1783 | 98.6821 | 91.1099 | 15053 | 15556 | 15050 | 201 | 2 | 0.9950 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 65.6529 | 54.9051 | 81.6327 | 49.3103 | 347 | 285 | 240 | 54 | 29 | 53.7037 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 65.6565 | 49.0835 | 99.1266 | 31.0241 | 241 | 250 | 227 | 2 | 1 | 50.0000 | |
| gduggal-snapfb | INDEL | * | HG002complexvar | hetalt | 65.6662 | 59.9081 | 72.6490 | 79.8155 | 2216 | 1483 | 1097 | 413 | 281 | 68.0387 | |
| ckim-isaac | INDEL | I1_5 | map_l250_m2_e0 | homalt | 65.6716 | 48.8889 | 100.0000 | 94.1176 | 22 | 23 | 22 | 0 | 0 | ||
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 65.6716 | 66.6667 | 64.7059 | 89.5246 | 68 | 34 | 77 | 42 | 4 | 9.5238 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 65.6716 | 50.0000 | 95.6522 | 50.0000 | 1 | 1 | 22 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 65.6871 | 92.0525 | 51.0621 | 85.0059 | 1193 | 103 | 1226 | 1175 | 118 | 10.0426 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 65.6904 | 70.9091 | 61.1872 | 88.2131 | 117 | 48 | 134 | 85 | 29 | 34.1176 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m1_e0 | het | 65.6975 | 86.6667 | 52.8986 | 82.1244 | 26 | 4 | 73 | 65 | 50 | 76.9231 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.7127 | 54.1731 | 83.4992 | 45.7734 | 1058 | 895 | 1007 | 199 | 131 | 65.8291 | |
| ciseli-custom | INDEL | * | map_l125_m0_e0 | * | 65.7143 | 59.9773 | 72.6648 | 92.6716 | 529 | 353 | 529 | 199 | 111 | 55.7789 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 65.7143 | 54.7619 | 82.1429 | 95.6923 | 23 | 19 | 23 | 5 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I6_15 | map_l100_m0_e0 | * | 65.7143 | 69.6970 | 62.1622 | 90.1857 | 23 | 10 | 23 | 14 | 7 | 50.0000 | |