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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55351-55400 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.3394 | 95.0151 | 97.7011 | 78.9127 | 629 | 33 | 595 | 14 | 7 | 50.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 73.9130 | 59.4406 | 97.7011 | 62.3377 | 170 | 116 | 170 | 4 | 4 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | func_cds | het | 98.8372 | 100.0000 | 97.7011 | 43.1373 | 85 | 0 | 85 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | I6_15 | map_siren | homalt | 96.6164 | 95.5556 | 97.7011 | 77.5194 | 86 | 4 | 85 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9984 | 90.5660 | 97.7011 | 85.4515 | 96 | 10 | 85 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9984 | 90.5660 | 97.7011 | 86.0577 | 96 | 10 | 85 | 2 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | * | map_l150_m1_e0 | homalt | 94.7603 | 91.9913 | 97.7011 | 86.5533 | 425 | 37 | 425 | 10 | 3 | 30.0000 | |
| jli-custom | INDEL | D6_15 | map_l100_m2_e0 | * | 96.9509 | 96.2121 | 97.7011 | 84.9394 | 254 | 10 | 255 | 6 | 1 | 16.6667 | |
| ckim-dragen | SNP | ti | map_siren | het | 98.6081 | 99.5319 | 97.7013 | 60.9808 | 62090 | 292 | 62097 | 1461 | 137 | 9.3771 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | * | 95.4155 | 93.2338 | 97.7017 | 49.8529 | 1998 | 145 | 1998 | 47 | 42 | 89.3617 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.5396 | 99.3917 | 97.7019 | 59.4515 | 2941 | 18 | 2976 | 70 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2829 | 94.9045 | 97.7021 | 68.8472 | 894 | 48 | 1233 | 29 | 19 | 65.5172 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | * | 84.6294 | 74.6420 | 97.7024 | 85.2765 | 34875 | 11848 | 34869 | 820 | 54 | 6.5854 | |
| ckim-dragen | INDEL | * | map_siren | * | 97.9669 | 98.2321 | 97.7032 | 83.7470 | 7279 | 131 | 7274 | 171 | 29 | 16.9591 | |
| ckim-isaac | INDEL | * | segdup | het | 97.0051 | 96.3165 | 97.7035 | 93.8034 | 1412 | 54 | 1404 | 33 | 20 | 60.6061 | |
| ckim-vqsr | INDEL | I1_5 | map_l125_m2_e0 | het | 95.7972 | 93.9638 | 97.7035 | 92.7237 | 467 | 30 | 468 | 11 | 1 | 9.0909 | |
| gduggal-snapfb | INDEL | * | map_l150_m2_e1 | homalt | 96.3955 | 95.1220 | 97.7035 | 92.1035 | 468 | 24 | 468 | 11 | 8 | 72.7273 | |
| gduggal-bwaplat | INDEL | I6_15 | * | * | 86.3949 | 77.4322 | 97.7041 | 60.0483 | 19221 | 5602 | 19235 | 452 | 296 | 65.4867 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4581 | 99.2238 | 97.7041 | 73.3786 | 767 | 6 | 766 | 18 | 3 | 16.6667 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4403 | 91.3876 | 97.7041 | 63.8876 | 764 | 72 | 766 | 18 | 15 | 83.3333 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.4147 | 99.1357 | 97.7041 | 87.0012 | 1147 | 10 | 1149 | 27 | 4 | 14.8148 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.4994 | 91.4980 | 97.7044 | 66.4420 | 678 | 63 | 681 | 16 | 7 | 43.7500 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.5497 | 95.4214 | 97.7049 | 66.6424 | 917 | 44 | 894 | 21 | 10 | 47.6190 | |
| ckim-isaac | INDEL | * | map_l150_m0_e0 | * | 72.7717 | 57.9767 | 97.7049 | 93.3158 | 298 | 216 | 298 | 7 | 2 | 28.5714 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.3254 | 96.9477 | 97.7059 | 65.2032 | 1874 | 59 | 1874 | 44 | 43 | 97.7273 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.3421 | 93.0894 | 97.7064 | 87.3182 | 229 | 17 | 213 | 5 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1203 | 98.5371 | 97.7070 | 73.4654 | 3570 | 53 | 3835 | 90 | 21 | 23.3333 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e0 | homalt | 95.6522 | 93.6813 | 97.7077 | 82.5500 | 341 | 23 | 341 | 8 | 1 | 12.5000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.6479 | 73.1252 | 97.7082 | 43.0315 | 5246 | 1928 | 5244 | 123 | 121 | 98.3740 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 78.5615 | 65.6891 | 97.7083 | 41.1043 | 224 | 117 | 469 | 11 | 8 | 72.7273 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | het | 98.3088 | 98.9160 | 97.7090 | 68.8770 | 1095 | 12 | 853 | 20 | 10 | 50.0000 | |
| gduggal-bwafb | INDEL | * | HG002compoundhet | hetalt | 88.3144 | 80.5679 | 97.7090 | 73.4740 | 20287 | 4893 | 6696 | 157 | 155 | 98.7261 | |
| gduggal-bwafb | INDEL | D6_15 | map_siren | homalt | 98.0843 | 98.4615 | 97.7099 | 87.2070 | 128 | 2 | 128 | 3 | 2 | 66.6667 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.6811 | 99.6718 | 97.7099 | 74.8698 | 911 | 3 | 896 | 21 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | map_siren | homalt | 98.0843 | 98.4615 | 97.7099 | 81.5752 | 128 | 2 | 128 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3320 | 98.9618 | 97.7101 | 71.4422 | 17634 | 185 | 17239 | 404 | 355 | 87.8713 | |
| raldana-dualsentieon | INDEL | D6_15 | * | homalt | 98.7805 | 99.8735 | 97.7111 | 54.0245 | 6318 | 8 | 6318 | 148 | 145 | 97.9730 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1191 | 96.5339 | 97.7114 | 58.6675 | 1866 | 67 | 1964 | 46 | 42 | 91.3043 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | * | 84.7588 | 74.8379 | 97.7121 | 85.2730 | 35325 | 11877 | 35319 | 827 | 55 | 6.6505 | |
| bgallagher-sentieon | SNP | tv | map_l250_m1_e0 | * | 98.0805 | 98.4511 | 97.7128 | 88.7082 | 2606 | 41 | 2606 | 61 | 12 | 19.6721 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.0188 | 98.3264 | 97.7131 | 72.8249 | 470 | 8 | 470 | 11 | 9 | 81.8182 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 73.6158 | 59.0525 | 97.7135 | 42.8517 | 1608 | 1115 | 1453 | 34 | 29 | 85.2941 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.8252 | 97.9371 | 97.7135 | 64.8985 | 3798 | 80 | 3718 | 87 | 10 | 11.4943 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.7908 | 73.3408 | 97.7136 | 42.2636 | 5216 | 1896 | 5214 | 122 | 120 | 98.3607 | |
| mlin-fermikit | SNP | ti | map_l250_m1_e0 | het | 42.7481 | 27.3585 | 97.7136 | 79.5371 | 812 | 2156 | 812 | 19 | 1 | 5.2632 | |
| ndellapenna-hhga | INDEL | I6_15 | * | * | 96.5902 | 95.4921 | 97.7138 | 48.4477 | 23704 | 1119 | 23721 | 555 | 427 | 76.9369 | |
| ciseli-custom | SNP | ti | func_cds | het | 98.4573 | 99.2121 | 97.7138 | 25.9135 | 8437 | 67 | 8420 | 197 | 2 | 1.0152 | |
| 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 | |