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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66701-66750 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1641 | 94.5607 | 99.9149 | 34.2105 | 1130 | 65 | 1174 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 92.3957 | 0.0000 | 0.0000 | 1130 | 93 | 0 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 81.8829 | 73.3939 | 92.5926 | 62.2269 | 1131 | 410 | 1825 | 146 | 139 | 95.2055 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 85.7476 | 75.5007 | 99.2126 | 87.1486 | 1131 | 367 | 1134 | 9 | 8 | 88.8889 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 43.4211 | 35.2336 | 56.5657 | 54.1348 | 1131 | 2079 | 1120 | 860 | 639 | 74.3023 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e1 | * | 98.0069 | 97.7528 | 98.2624 | 85.8582 | 1131 | 26 | 1131 | 20 | 8 | 40.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.5631 | 82.9787 | 88.3137 | 74.1798 | 1131 | 232 | 1126 | 149 | 144 | 96.6443 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e1 | * | 98.2208 | 97.7528 | 98.6934 | 85.3084 | 1131 | 26 | 1133 | 15 | 4 | 26.6667 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 87.8155 | 85.8877 | 89.8319 | 60.6862 | 1132 | 186 | 1122 | 127 | 125 | 98.4252 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 84.1998 | 75.5674 | 95.0586 | 89.6740 | 1132 | 366 | 1135 | 59 | 25 | 42.3729 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.9520 | 99.0376 | 98.8666 | 84.6288 | 1132 | 11 | 1134 | 13 | 3 | 23.0769 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 58.8731 | 57.9621 | 59.8131 | 41.7312 | 1132 | 821 | 1216 | 817 | 563 | 68.9106 | |
| anovak-vg | INDEL | I1_5 | map_siren | homalt | 68.1692 | 93.3993 | 53.6710 | 71.9974 | 1132 | 80 | 1155 | 997 | 947 | 94.9850 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 68.7500 | 53.2425 | 97.0034 | 79.7187 | 1133 | 995 | 1133 | 35 | 29 | 82.8571 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e1 | * | 97.8272 | 97.9257 | 97.7289 | 86.7675 | 1133 | 24 | 1377 | 32 | 17 | 53.1250 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.3954 | 99.1251 | 97.6764 | 86.9350 | 1133 | 10 | 1135 | 27 | 4 | 14.8148 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e0 | * | 98.6532 | 99.2126 | 98.1002 | 87.4743 | 1134 | 9 | 1136 | 22 | 5 | 22.7273 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.3378 | 87.8389 | 99.5712 | 29.6743 | 1134 | 157 | 1161 | 5 | 5 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 82.8565 | 74.9009 | 92.7029 | 85.1241 | 1134 | 380 | 1245 | 98 | 12 | 12.2449 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.3378 | 87.8389 | 99.5712 | 29.6743 | 1134 | 157 | 1161 | 5 | 5 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.2746 | 85.2632 | 38.7403 | 67.1378 | 1134 | 196 | 1144 | 1809 | 1797 | 99.3367 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.7092 | 86.1153 | 98.0803 | 52.6837 | 1135 | 183 | 1124 | 22 | 22 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | hetalt | 95.3564 | 92.8046 | 98.0525 | 53.9032 | 1135 | 88 | 1158 | 23 | 21 | 91.3043 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 68.4924 | 85.2853 | 57.2248 | 41.5985 | 1136 | 196 | 5390 | 4029 | 3815 | 94.6885 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.3466 | 87.9938 | 99.3929 | 37.8101 | 1136 | 155 | 1146 | 7 | 7 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 78.5716 | 74.3137 | 83.3471 | 67.6060 | 1137 | 393 | 2012 | 402 | 245 | 60.9453 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 78.5716 | 74.3137 | 83.3471 | 67.6060 | 1137 | 393 | 2012 | 402 | 245 | 60.9453 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1924 | 95.1464 | 99.3283 | 34.1625 | 1137 | 58 | 1183 | 8 | 8 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1522 | 95.1464 | 99.2443 | 33.7229 | 1137 | 58 | 1182 | 9 | 8 | 88.8889 | |
| ckim-isaac | SNP | tv | map_l250_m1_e0 | * | 60.0000 | 42.9543 | 99.4751 | 90.6960 | 1137 | 1510 | 1137 | 6 | 1 | 16.6667 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m2_e1 | * | 98.3578 | 98.3578 | 98.3578 | 86.6797 | 1138 | 19 | 1138 | 19 | 6 | 31.5789 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2418 | 98.3578 | 94.2149 | 90.9091 | 1138 | 19 | 1140 | 70 | 6 | 8.5714 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | homalt | 94.3279 | 97.3482 | 91.4894 | 56.3918 | 1138 | 31 | 1161 | 108 | 53 | 49.0741 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | homalt | 95.9129 | 92.7465 | 99.3031 | 75.5380 | 1138 | 89 | 1140 | 8 | 5 | 62.5000 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e0 | het | 72.5709 | 58.7113 | 94.9958 | 96.9665 | 1139 | 801 | 1139 | 60 | 1 | 1.6667 | |
| ckim-dragen | INDEL | I6_15 | HG002complexvar | hetalt | 96.4437 | 93.1316 | 100.0000 | 55.3409 | 1139 | 84 | 1179 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.4031 | 98.4443 | 98.3621 | 86.6144 | 1139 | 18 | 1141 | 19 | 8 | 42.1053 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | HG002complexvar | * | 92.2852 | 87.0130 | 98.2375 | 52.4691 | 1139 | 170 | 1059 | 19 | 16 | 84.2105 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| asubramanian-gatk | INDEL | I1_5 | map_l100_m1_e0 | * | 91.2060 | 85.1382 | 98.2051 | 87.1018 | 1140 | 199 | 1149 | 21 | 4 | 19.0476 | |
| jli-custom | INDEL | I6_15 | HG002complexvar | hetalt | 96.4875 | 93.2134 | 100.0000 | 52.5574 | 1140 | 83 | 1178 | 0 | 0 | ||
| 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 | |
| gduggal-snapplat | SNP | * | map_l250_m0_e0 | het | 82.6147 | 75.6972 | 90.9236 | 97.0301 | 1140 | 366 | 1142 | 114 | 41 | 35.9649 | |
| gduggal-snapplat | INDEL | * | map_l100_m0_e0 | * | 80.3694 | 72.9367 | 89.4891 | 92.8627 | 1140 | 423 | 1226 | 144 | 20 | 13.8889 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 83.8207 | 76.4233 | 92.8036 | 43.9496 | 1141 | 352 | 619 | 48 | 37 | 77.0833 | |
| jli-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6603 | 98.6171 | 98.7035 | 86.0971 | 1141 | 16 | 1142 | 15 | 5 | 33.3333 | |
| anovak-vg | INDEL | * | map_l100_m0_e0 | * | 72.6539 | 73.0006 | 72.3105 | 87.1262 | 1141 | 422 | 1183 | 453 | 264 | 58.2781 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.9790 | 96.8591 | 87.5672 | 69.0278 | 1141 | 37 | 1141 | 162 | 155 | 95.6790 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5538 | 96.9440 | 94.2029 | 48.6379 | 1142 | 36 | 3055 | 188 | 176 | 93.6170 | |
| ckim-gatk | SNP | tv | map_l250_m2_e0 | het | 72.7389 | 58.8660 | 95.1667 | 96.8726 | 1142 | 798 | 1142 | 58 | 1 | 1.7241 | |