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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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14051-14100 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 77.0774 | 70.4225 | 85.1214 | 55.3497 | 350 | 147 | 1087 | 190 | 150 | 78.9474 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e0 | homalt | 82.9231 | 72.3164 | 97.1761 | 79.6553 | 384 | 147 | 585 | 17 | 3 | 17.6471 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 86.4554 | 77.3846 | 97.9351 | 23.6486 | 503 | 147 | 332 | 7 | 7 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 90.6525 | 87.0027 | 94.6221 | 51.2057 | 984 | 147 | 651 | 37 | 36 | 97.2973 | |
| gduggal-bwafb | SNP | * | map_l250_m1_e0 | het | 97.0310 | 96.9085 | 97.1537 | 89.8249 | 4608 | 147 | 4608 | 135 | 33 | 24.4444 | |
| eyeh-varpipe | SNP | ti | HG002compoundhet | * | 97.7572 | 99.1589 | 96.3946 | 39.7398 | 17331 | 147 | 12860 | 481 | 101 | 20.9979 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | homalt | 63.4446 | 78.5714 | 53.2020 | 84.3340 | 539 | 147 | 540 | 475 | 429 | 90.3158 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 69.4825 | 55.4545 | 93.0108 | 50.6631 | 183 | 147 | 173 | 13 | 9 | 69.2308 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | het | 84.7249 | 91.5509 | 78.8462 | 70.2988 | 1582 | 146 | 533 | 143 | 97 | 67.8322 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 60.0589 | 91.9736 | 44.5872 | 75.8345 | 1673 | 146 | 1701 | 2114 | 1899 | 89.8297 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 60.0589 | 91.9736 | 44.5872 | 75.8345 | 1673 | 146 | 1701 | 2114 | 1899 | 89.8297 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.1766 | 96.2264 | 35.7920 | 50.1344 | 3723 | 146 | 3717 | 6668 | 6640 | 99.5801 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e1 | het | 95.8207 | 93.7687 | 97.9645 | 83.6078 | 2197 | 146 | 2262 | 47 | 8 | 17.0213 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.3465 | 85.0256 | 98.6826 | 42.3343 | 829 | 146 | 824 | 11 | 11 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.4668 | 93.9469 | 99.1255 | 62.0415 | 2266 | 146 | 2267 | 20 | 13 | 65.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5328 | 99.1399 | 99.9287 | 67.1581 | 16829 | 146 | 16829 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5328 | 99.1399 | 99.9287 | 67.1581 | 16829 | 146 | 16829 | 12 | 12 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.8788 | 84.7120 | 89.1593 | 77.2464 | 809 | 146 | 806 | 98 | 98 | 100.0000 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.7838 | 93.8345 | 80.7186 | 89.0750 | 2222 | 146 | 2269 | 542 | 180 | 33.2103 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e1 | * | 93.6537 | 92.4703 | 94.8677 | 84.4955 | 1793 | 146 | 1793 | 97 | 64 | 65.9794 | |
| ltrigg-rtg1 | SNP | tv | HG002complexvar | homalt | 99.9101 | 99.8465 | 99.9737 | 22.5425 | 94965 | 146 | 95003 | 25 | 19 | 76.0000 | |
| jlack-gatk | SNP | * | map_l125_m0_e0 | homalt | 98.7740 | 97.8248 | 99.7418 | 68.3464 | 6566 | 146 | 6566 | 17 | 12 | 70.5882 | |
| jlack-gatk | SNP | ti | map_l100_m0_e0 | homalt | 98.9685 | 98.1219 | 99.8299 | 59.9927 | 7628 | 146 | 7628 | 13 | 11 | 84.6154 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | * | 94.5181 | 98.7142 | 90.6642 | 84.3431 | 11209 | 146 | 11207 | 1154 | 67 | 5.8059 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | * | 99.2955 | 99.2468 | 99.3441 | 74.5016 | 19239 | 146 | 19236 | 127 | 18 | 14.1732 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.5626 | 95.3621 | 99.8669 | 70.0866 | 3002 | 146 | 3002 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | * | map_l125_m0_e0 | * | 99.0092 | 99.2468 | 98.7728 | 76.6565 | 19239 | 146 | 19236 | 239 | 30 | 12.5523 | |
| dgrover-gatk | INDEL | I16_PLUS | HG002compoundhet | hetalt | 96.3626 | 93.0244 | 99.9492 | 46.0126 | 1947 | 146 | 1969 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0062 | 95.1023 | 98.9878 | 50.0871 | 2835 | 146 | 2836 | 29 | 24 | 82.7586 | |
| gduggal-snapplat | SNP | * | map_l250_m0_e0 | homalt | 86.7142 | 76.7886 | 99.5868 | 94.0431 | 483 | 146 | 482 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_l250_m1_e0 | het | 93.8477 | 95.0809 | 92.6461 | 86.7956 | 2822 | 146 | 2822 | 224 | 118 | 52.6786 | |
| gduggal-snapfb | SNP | ti | map_l250_m2_e0 | homalt | 95.4735 | 91.6524 | 99.6271 | 92.3917 | 1603 | 146 | 1603 | 6 | 5 | 83.3333 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m1_e0 | homalt | 82.5627 | 71.8147 | 97.0940 | 78.6652 | 372 | 146 | 568 | 17 | 3 | 17.6471 | |
| mlin-fermikit | INDEL | I16_PLUS | HG002complexvar | hetalt | 71.7549 | 56.4179 | 98.5437 | 70.9450 | 189 | 146 | 203 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6386 | 95.9000 | 99.4413 | 58.6605 | 3415 | 146 | 3382 | 19 | 14 | 73.6842 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4167 | 97.7259 | 97.1096 | 71.4786 | 6274 | 146 | 6249 | 186 | 32 | 17.2043 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4167 | 97.7259 | 97.1096 | 71.4786 | 6274 | 146 | 6249 | 186 | 32 | 17.2043 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4473 | 99.1113 | 99.7856 | 56.2027 | 16283 | 146 | 16290 | 35 | 23 | 65.7143 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e1 | * | 98.1843 | 98.1720 | 98.1966 | 88.3789 | 7841 | 146 | 7841 | 144 | 6 | 4.1667 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 67.4506 | 68.3983 | 66.5289 | 66.7811 | 316 | 146 | 322 | 162 | 105 | 64.8148 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.0253 | 80.8399 | 83.2461 | 66.0293 | 616 | 146 | 636 | 128 | 70 | 54.6875 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 72.4560 | 79.2319 | 66.7478 | 27.2137 | 557 | 146 | 823 | 410 | 336 | 81.9512 | |
| bgallagher-sentieon | SNP | * | HG002complexvar | homalt | 99.9685 | 99.9494 | 99.9875 | 19.8511 | 288428 | 146 | 288403 | 36 | 34 | 94.4444 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e0 | het | 98.7961 | 99.2748 | 98.3220 | 79.7541 | 19987 | 146 | 19981 | 341 | 50 | 14.6628 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | het | 98.8048 | 99.2830 | 98.3312 | 79.8100 | 20217 | 146 | 20211 | 343 | 50 | 14.5773 | |
| bgallagher-sentieon | SNP | * | map_l100_m0_e0 | het | 98.8545 | 99.3162 | 98.3971 | 73.2385 | 21060 | 145 | 21056 | 343 | 49 | 14.2857 | |
| bgallagher-sentieon | SNP | * | map_l150_m1_e0 | het | 98.7760 | 99.2493 | 98.3073 | 78.6499 | 19171 | 145 | 19165 | 330 | 49 | 14.8485 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.3414 | 99.5344 | 99.1492 | 66.7959 | 30998 | 145 | 30998 | 266 | 16 | 6.0150 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.3414 | 99.5344 | 99.1492 | 66.7959 | 30998 | 145 | 30998 | 266 | 16 | 6.0150 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | * | 99.2132 | 99.3340 | 99.0926 | 69.0197 | 21626 | 145 | 21623 | 198 | 35 | 17.6768 | |