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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68001-68050 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4887 | 99.3450 | 99.6329 | 63.1294 | 1365 | 9 | 1357 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 73.2002 | 89.9486 | 61.7099 | 71.3186 | 1226 | 137 | 1357 | 842 | 135 | 16.0333 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.5815 | 94.1667 | 99.1234 | 62.7989 | 1356 | 84 | 1357 | 12 | 7 | 58.3333 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9412 | 98.9035 | 98.9788 | 84.3278 | 1353 | 15 | 1357 | 14 | 4 | 28.5714 | |
| ckim-dragen | INDEL | * | map_l125_m2_e1 | het | 95.7012 | 96.4489 | 94.9650 | 90.2767 | 1358 | 50 | 1358 | 72 | 8 | 11.1111 | |
| ckim-isaac | INDEL | * | map_l125_m1_e0 | * | 77.9687 | 64.4993 | 98.5486 | 87.4682 | 1359 | 748 | 1358 | 20 | 8 | 40.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4495 | 99.2663 | 99.6334 | 73.6527 | 1353 | 10 | 1359 | 5 | 3 | 60.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 36.4602 | 27.1762 | 55.3790 | 36.8827 | 256 | 686 | 1359 | 1095 | 912 | 83.2877 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.9799 | 98.8355 | 99.1247 | 71.3838 | 1358 | 16 | 1359 | 12 | 9 | 75.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002compoundhet | hetalt | 78.6021 | 65.0263 | 99.3421 | 43.5644 | 1361 | 732 | 1359 | 9 | 8 | 88.8889 | |
| cchapple-custom | INDEL | * | map_l125_m1_e0 | het | 94.5817 | 96.3296 | 92.8962 | 87.3662 | 1286 | 49 | 1360 | 104 | 19 | 18.2692 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.2074 | 76.7402 | 95.7746 | 76.7746 | 1356 | 411 | 1360 | 60 | 34 | 56.6667 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.1102 | 96.2906 | 100.0000 | 36.8910 | 1246 | 48 | 1360 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.1102 | 96.2906 | 100.0000 | 36.5079 | 1246 | 48 | 1360 | 0 | 0 | ||
| qzeng-custom | INDEL | * | map_l100_m2_e0 | homalt | 85.5333 | 78.7470 | 93.5994 | 81.7141 | 993 | 268 | 1360 | 93 | 14 | 15.0538 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.5179 | 97.5818 | 93.5395 | 36.9311 | 686 | 17 | 1361 | 94 | 10 | 10.6383 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8234 | 96.2133 | 99.4883 | 36.4312 | 1245 | 49 | 1361 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m0_e0 | homalt | 66.0199 | 49.2937 | 99.9266 | 83.9216 | 1361 | 1400 | 1361 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 76.1858 | 63.3364 | 95.5758 | 44.5914 | 1363 | 789 | 1361 | 63 | 54 | 85.7143 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.4484 | 76.9057 | 98.6947 | 50.6089 | 1362 | 409 | 1361 | 18 | 16 | 88.8889 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e0 | * | 97.8366 | 97.9003 | 97.7730 | 86.6718 | 1119 | 24 | 1361 | 31 | 16 | 51.6129 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 76.1858 | 63.3364 | 95.5758 | 45.0405 | 1363 | 789 | 1361 | 63 | 51 | 80.9524 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8234 | 96.2133 | 99.4883 | 36.4312 | 1245 | 49 | 1361 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e0 | het | 97.4161 | 97.2682 | 97.5645 | 86.6946 | 1353 | 38 | 1362 | 34 | 9 | 26.4706 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m2_e1 | * | 96.6561 | 94.3711 | 99.0545 | 86.0293 | 1358 | 81 | 1362 | 13 | 3 | 23.0769 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2468 | 97.8723 | 98.6242 | 69.6350 | 1334 | 29 | 1362 | 19 | 4 | 21.0526 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | het | 91.3175 | 97.9152 | 85.5528 | 92.0328 | 1362 | 29 | 1362 | 230 | 74 | 32.1739 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9433 | 96.4451 | 99.4887 | 36.9705 | 1248 | 46 | 1362 | 7 | 7 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 90.2617 | 90.9209 | 89.6121 | 75.0082 | 1402 | 140 | 1363 | 158 | 97 | 61.3924 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | hetalt | 78.3575 | 65.0620 | 98.4827 | 54.0810 | 1365 | 733 | 1363 | 21 | 19 | 90.4762 | |
| gduggal-bwafb | INDEL | * | map_l125_m2_e1 | het | 96.1685 | 94.7443 | 97.6361 | 86.4189 | 1334 | 74 | 1363 | 33 | 3 | 9.0909 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9833 | 96.5224 | 99.4891 | 37.1848 | 1249 | 45 | 1363 | 7 | 7 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002compoundhet | hetalt | 79.6129 | 66.1307 | 100.0000 | 26.1105 | 1275 | 653 | 1364 | 0 | 0 | ||
| qzeng-custom | SNP | tv | map_l250_m2_e1 | het | 78.9288 | 69.9746 | 90.5109 | 96.1912 | 1375 | 590 | 1364 | 143 | 116 | 81.1189 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 86.4073 | 86.7056 | 86.1111 | 74.4351 | 1337 | 205 | 1364 | 220 | 118 | 53.6364 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 76.6177 | 84.7222 | 69.9283 | 81.0889 | 1098 | 198 | 1365 | 587 | 286 | 48.7223 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e0 | * | 97.3214 | 96.6619 | 97.9899 | 88.6072 | 1361 | 47 | 1365 | 28 | 4 | 14.2857 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.2658 | 99.8611 | 92.9204 | 71.7174 | 1438 | 2 | 1365 | 104 | 1 | 0.9615 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.8721 | 77.5325 | 98.7699 | 72.5739 | 1370 | 397 | 1365 | 17 | 15 | 88.2353 | |
| jli-custom | INDEL | * | map_l125_m2_e0 | het | 98.3415 | 97.9871 | 98.6985 | 86.8786 | 1363 | 28 | 1365 | 18 | 4 | 22.2222 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.9484 | 97.0888 | 96.8085 | 71.1597 | 1334 | 40 | 1365 | 45 | 15 | 33.3333 | |
| gduggal-snapplat | INDEL | * | HG002complexvar | hetalt | 48.8074 | 34.6851 | 82.3281 | 84.4012 | 1283 | 2416 | 1365 | 293 | 225 | 76.7918 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5258 | 99.2722 | 99.7807 | 70.9677 | 1364 | 10 | 1365 | 3 | 1 | 33.3333 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8173 | 100.0000 | 99.6353 | 62.2834 | 1383 | 0 | 1366 | 5 | 2 | 40.0000 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9276 | 99.8554 | 100.0000 | 53.0584 | 1381 | 2 | 1366 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5267 | 99.5633 | 99.4902 | 73.5096 | 1368 | 6 | 1366 | 7 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e0 | het | 97.7762 | 97.7714 | 97.7810 | 87.2105 | 1360 | 31 | 1366 | 31 | 10 | 32.2581 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 89.3062 | 89.0402 | 89.5738 | 76.8026 | 1373 | 169 | 1366 | 159 | 137 | 86.1635 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e0 | * | 97.6365 | 96.7330 | 98.5570 | 88.7837 | 1362 | 46 | 1366 | 20 | 4 | 20.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2012 | 98.4859 | 99.9268 | 62.0594 | 1366 | 21 | 1366 | 1 | 0 | 0.0000 | |