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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25651-25700 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I16_PLUS | * | homalt | 94.2470 | 92.2486 | 96.3340 | 45.0988 | 1440 | 121 | 1419 | 54 | 53 | 98.1481 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7438 | 99.4888 | 100.0000 | 45.1051 | 2141 | 11 | 2142 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.6527 | 80.4403 | 87.1324 | 45.1060 | 950 | 231 | 948 | 140 | 140 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.4619 | 100.0000 | 95.0495 | 45.1087 | 192 | 0 | 192 | 10 | 9 | 90.0000 | |
| ckim-isaac | INDEL | I1_5 | * | hetalt | 89.8867 | 82.5636 | 98.6351 | 45.1097 | 9243 | 1952 | 9178 | 127 | 112 | 88.1890 | |
| dgrover-gatk | INDEL | * | func_cds | * | 99.5531 | 99.7753 | 99.3318 | 45.1100 | 444 | 1 | 446 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.0162 | 71.4904 | 98.9726 | 45.1128 | 1156 | 461 | 1156 | 12 | 11 | 91.6667 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 90.8048 | 89.3111 | 92.3494 | 45.1133 | 3267 | 391 | 4092 | 339 | 139 | 41.0029 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8037 | 88.4906 | 99.7955 | 45.1178 | 469 | 61 | 488 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8037 | 88.4906 | 99.7955 | 45.1178 | 469 | 61 | 488 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 94.0939 | 89.9412 | 98.6486 | 45.1271 | 4891 | 547 | 511 | 7 | 7 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | het | 89.4381 | 87.7564 | 91.1854 | 45.1275 | 2738 | 382 | 2100 | 203 | 195 | 96.0591 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | het | 99.5408 | 99.3864 | 99.6957 | 45.1283 | 14091 | 87 | 14087 | 43 | 32 | 74.4186 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3014 | 97.1593 | 99.4708 | 45.1343 | 14365 | 420 | 14284 | 76 | 68 | 89.4737 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.5798 | 98.0799 | 95.1250 | 45.1378 | 3831 | 75 | 3805 | 195 | 3 | 1.5385 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.7110 | 91.4414 | 96.0961 | 45.1400 | 203 | 19 | 320 | 13 | 11 | 84.6154 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4801 | 83.0652 | 88.0396 | 45.1406 | 981 | 200 | 979 | 133 | 132 | 99.2481 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 39.2277 | 31.6516 | 51.5719 | 45.1410 | 665 | 1436 | 853 | 801 | 448 | 55.9301 | |
| jli-custom | INDEL | D16_PLUS | HG002complexvar | hetalt | 94.0295 | 91.0931 | 97.1616 | 45.1497 | 225 | 22 | 445 | 13 | 13 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4476 | 97.2827 | 97.6130 | 45.1498 | 9201 | 257 | 9201 | 225 | 220 | 97.7778 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 45.1539 | 481 | 0 | 481 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| asubramanian-gatk | SNP | ti | tech_badpromoters | * | 98.8235 | 98.8235 | 98.8235 | 45.1613 | 84 | 1 | 84 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | tech_badpromoters | * | 98.8235 | 98.8235 | 98.8235 | 45.1613 | 84 | 1 | 84 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9013 | 96.7415 | 99.0893 | 45.1717 | 12113 | 408 | 33076 | 304 | 254 | 83.5526 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 93.3528 | 88.7263 | 98.4883 | 45.1727 | 8248 | 1048 | 8535 | 131 | 123 | 93.8931 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6399 | 99.2823 | 100.0000 | 45.1783 | 415 | 3 | 415 | 0 | 0 | ||
| ckim-isaac | INDEL | D1_5 | HG002complexvar | het | 94.5641 | 92.7330 | 96.4689 | 45.1790 | 19256 | 1509 | 18687 | 684 | 323 | 47.2222 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 73.0180 | 70.7114 | 75.4801 | 45.1896 | 4761 | 1972 | 4756 | 1545 | 1527 | 98.8350 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 62.3929 | 45.5428 | 99.0338 | 45.1898 | 751 | 898 | 615 | 6 | 5 | 83.3333 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 56.1720 | 50.7947 | 62.8225 | 45.1920 | 7510 | 7275 | 7523 | 4452 | 4009 | 90.0494 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.3814 | 98.9059 | 76.6723 | 45.1991 | 2260 | 25 | 2258 | 687 | 651 | 94.7598 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.6418 | 84.5730 | 100.0000 | 45.2055 | 307 | 56 | 320 | 0 | 0 | ||
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4124 | 99.3179 | 99.5070 | 45.2160 | 1456 | 10 | 1413 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.6047 | 83.4039 | 87.9249 | 45.2229 | 985 | 196 | 983 | 135 | 134 | 99.2593 | |
| ltrigg-rtg2 | SNP | ti | map_siren | het | 99.2569 | 98.8202 | 99.6976 | 45.2238 | 61645 | 736 | 61646 | 187 | 11 | 5.8824 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.3405 | 66.4921 | 81.7614 | 45.2275 | 1397 | 704 | 1309 | 292 | 281 | 96.2329 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0004 | 95.5487 | 96.4564 | 45.2361 | 9037 | 421 | 9037 | 332 | 315 | 94.8795 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 45.2381 | 22 | 3 | 23 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 45.2381 | 22 | 3 | 23 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 45.2381 | 22 | 3 | 23 | 0 | 0 | ||
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 91.7011 | 87.0959 | 96.8206 | 45.2421 | 9672 | 1433 | 2223 | 73 | 72 | 98.6301 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.6794 | 97.9405 | 70.0491 | 45.2509 | 428 | 9 | 428 | 183 | 183 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.7127 | 90.8139 | 88.6378 | 45.2529 | 10064 | 1018 | 10984 | 1408 | 719 | 51.0653 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.8304 | 69.7614 | 98.9490 | 45.2532 | 1871 | 811 | 1883 | 20 | 20 | 100.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9358 | 97.0774 | 98.8095 | 45.2536 | 31057 | 935 | 41417 | 499 | 447 | 89.5792 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 67.7028 | 91.6754 | 53.6688 | 45.2639 | 10528 | 956 | 14570 | 12578 | 12360 | 98.2668 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.4441 | 98.6928 | 76.9001 | 45.2692 | 151 | 2 | 1032 | 310 | 290 | 93.5484 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8931 | 97.7585 | 98.0280 | 45.2710 | 9246 | 212 | 9246 | 186 | 181 | 97.3118 | |