PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27901-27950 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | D1_5 | HG002compoundhet | homalt | 30.3224 | 87.2852 | 18.3482 | 73.7981 | 254 | 37 | 431 | 1918 | 1670 | 87.0699 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8342 | 98.4496 | 99.2218 | 63.6492 | 254 | 4 | 255 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 93.0561 | 88.8112 | 97.7273 | 51.9782 | 254 | 32 | 344 | 8 | 8 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m2_e0 | * | 96.2121 | 96.2121 | 96.2121 | 87.5589 | 254 | 10 | 254 | 10 | 2 | 20.0000 | |
| jli-custom | INDEL | D6_15 | map_l100_m2_e0 | * | 96.9509 | 96.2121 | 97.7011 | 84.9394 | 254 | 10 | 255 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.8327 | 98.4496 | 99.2188 | 83.8384 | 254 | 4 | 254 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 84.1931 | 94.0741 | 76.1905 | 60.9756 | 254 | 16 | 256 | 80 | 78 | 97.5000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7619 | 98.0695 | 95.4887 | 59.2649 | 254 | 5 | 254 | 12 | 10 | 83.3333 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 98.2592 | 98.0695 | 98.4496 | 56.8562 | 254 | 5 | 254 | 4 | 3 | 75.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 98.2592 | 98.0695 | 98.4496 | 57.0715 | 254 | 5 | 254 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 77.8604 | 71.7514 | 85.1064 | 55.9513 | 254 | 100 | 400 | 70 | 67 | 95.7143 | |
| gduggal-bwaplat | SNP | tv | map_l250_m2_e1 | homalt | 42.3333 | 26.8499 | 100.0000 | 96.2581 | 254 | 692 | 254 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.8327 | 98.4496 | 99.2188 | 81.9337 | 254 | 4 | 254 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.7495 | 94.0520 | 99.6063 | 76.6972 | 253 | 16 | 253 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 96.1977 | 95.8333 | 96.5649 | 87.7741 | 253 | 11 | 253 | 9 | 2 | 22.2222 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.5649 | 94.0520 | 99.2157 | 76.9231 | 253 | 16 | 253 | 2 | 1 | 50.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 32.6056 | 25.2495 | 46.0100 | 54.7659 | 253 | 749 | 369 | 433 | 324 | 74.8268 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.5649 | 94.0520 | 99.2157 | 77.2930 | 253 | 16 | 253 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 95.6522 | 95.8333 | 95.4717 | 89.6927 | 253 | 11 | 253 | 12 | 2 | 16.6667 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e0 | * | 55.9084 | 48.7476 | 65.5352 | 92.4128 | 253 | 266 | 251 | 132 | 111 | 84.0909 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9349 | 94.0520 | 100.0000 | 76.4870 | 253 | 16 | 253 | 0 | 0 | ||
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 44.9406 | 29.0138 | 99.6337 | 37.6712 | 253 | 619 | 272 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l250_m0_e0 | homalt | 49.5108 | 40.2226 | 64.3766 | 80.0000 | 253 | 376 | 253 | 140 | 131 | 93.5714 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m0_e0 | homalt | 97.1860 | 98.0620 | 96.3255 | 87.0584 | 253 | 5 | 367 | 14 | 10 | 71.4286 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.6834 | 98.0620 | 97.3077 | 65.4714 | 253 | 5 | 253 | 7 | 7 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | map_siren | het | 93.8000 | 90.3571 | 97.5155 | 79.0228 | 253 | 27 | 314 | 8 | 1 | 12.5000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7495 | 97.6834 | 95.8333 | 56.5789 | 253 | 6 | 253 | 11 | 10 | 90.9091 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.8281 | 98.0620 | 99.6063 | 82.5669 | 253 | 5 | 253 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 94.7739 | 90.6810 | 99.2537 | 66.3317 | 253 | 26 | 266 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7495 | 97.6834 | 95.8333 | 57.2816 | 253 | 6 | 253 | 11 | 10 | 90.9091 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e0 | * | 96.9231 | 95.4545 | 98.4375 | 84.3807 | 252 | 12 | 252 | 4 | 1 | 25.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.4375 | 97.6744 | 99.2126 | 83.3878 | 252 | 6 | 252 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m2_e0 | * | 96.5517 | 95.4545 | 97.6744 | 88.7582 | 252 | 12 | 252 | 6 | 1 | 16.6667 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.8396 | 97.2973 | 83.4437 | 59.6257 | 252 | 7 | 252 | 50 | 48 | 96.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.0943 | 97.2973 | 92.9889 | 49.2509 | 252 | 7 | 252 | 19 | 17 | 89.4737 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.8691 | 93.6803 | 98.1627 | 71.5034 | 252 | 17 | 374 | 7 | 6 | 85.7143 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | homalt | 27.7922 | 86.5979 | 16.5522 | 77.7097 | 252 | 39 | 241 | 1215 | 1169 | 96.2140 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.0605 | 97.6744 | 98.4496 | 88.7336 | 252 | 6 | 254 | 4 | 2 | 50.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 43.4048 | 30.1435 | 77.5000 | 51.4416 | 252 | 584 | 248 | 72 | 70 | 97.2222 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 55.0640 | 44.6809 | 71.7340 | 85.7770 | 252 | 312 | 302 | 119 | 38 | 31.9328 | |
| gduggal-snapplat | INDEL | * | map_l150_m0_e0 | het | 78.1739 | 73.9003 | 82.9721 | 96.4230 | 252 | 89 | 268 | 55 | 9 | 16.3636 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.7503 | 87.5000 | 90.0369 | 78.1275 | 252 | 36 | 244 | 27 | 25 | 92.5926 | |
| dgrover-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 96.1832 | 95.4545 | 96.9231 | 88.0624 | 252 | 12 | 252 | 8 | 2 | 25.0000 | |
| ckim-vqsr | SNP | tv | map_l250_m0_e0 | het | 60.2871 | 44.0559 | 95.4545 | 98.5526 | 252 | 320 | 252 | 12 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l100_m2_e0 | * | 96.0000 | 95.4545 | 96.5517 | 89.8325 | 252 | 12 | 252 | 9 | 2 | 22.2222 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.8820 | 73.9003 | 96.9811 | 55.3872 | 252 | 89 | 257 | 8 | 7 | 87.5000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8235 | 97.6744 | 100.0000 | 58.1549 | 252 | 6 | 254 | 0 | 0 | ||
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.7617 | 87.5000 | 90.0602 | 60.8952 | 252 | 36 | 598 | 66 | 60 | 90.9091 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8235 | 97.6744 | 100.0000 | 54.6263 | 252 | 6 | 255 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m0_e0 | homalt | 98.6294 | 97.6744 | 99.6032 | 75.2456 | 252 | 6 | 251 | 1 | 1 | 100.0000 | |