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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17051-17100 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 89.1830 | 82.6962 | 96.7742 | 67.5635 | 411 | 86 | 420 | 14 | 13 | 92.8571 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7497 | 97.7134 | 99.8083 | 64.4325 | 3675 | 86 | 3644 | 7 | 4 | 57.1429 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7497 | 97.7134 | 99.8083 | 64.4325 | 3675 | 86 | 3644 | 7 | 4 | 57.1429 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e0 | homalt | 99.8108 | 99.6875 | 99.9344 | 60.3899 | 27437 | 86 | 27435 | 18 | 16 | 88.8889 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | homalt | 99.8127 | 99.6906 | 99.9351 | 60.3846 | 27710 | 86 | 27708 | 18 | 16 | 88.8889 | |
| mlin-fermikit | SNP | ti | func_cds | het | 99.4565 | 98.9887 | 99.9288 | 17.2332 | 8418 | 86 | 8418 | 6 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1511 | 98.7248 | 99.5812 | 37.8775 | 6658 | 86 | 6657 | 28 | 16 | 57.1429 | |
| qzeng-custom | INDEL | * | map_l125_m0_e0 | homalt | 80.6569 | 69.7183 | 95.6667 | 90.1704 | 198 | 86 | 287 | 13 | 4 | 30.7692 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 34.8485 | 0.0000 | 0.0000 | 46 | 86 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 87.1392 | 90.6725 | 83.8710 | 73.1533 | 836 | 86 | 884 | 170 | 86 | 50.5882 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| astatham-gatk | SNP | ti | map_l150_m1_e0 | homalt | 99.3483 | 98.8263 | 99.8759 | 68.2477 | 7241 | 86 | 7241 | 9 | 8 | 88.8889 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 89.7493 | 83.4297 | 97.1047 | 92.9146 | 433 | 86 | 436 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.6630 | 98.1948 | 97.1369 | 68.1953 | 4678 | 86 | 4682 | 138 | 8 | 5.7971 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1659 | 98.5874 | 99.7512 | 54.8686 | 6002 | 86 | 6015 | 15 | 3 | 20.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 40.2391 | 29.5082 | 63.2353 | 29.4815 | 36 | 86 | 301 | 175 | 141 | 80.5714 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6272 | 95.0801 | 96.1806 | 60.9315 | 1662 | 86 | 1662 | 66 | 49 | 74.2424 | |
| bgallagher-sentieon | SNP | tv | map_l125_m1_e0 | * | 99.1503 | 99.4630 | 98.8396 | 71.8727 | 15930 | 86 | 15928 | 187 | 28 | 14.9733 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e0 | * | 99.1716 | 99.4784 | 98.8667 | 73.4826 | 16403 | 86 | 16401 | 188 | 28 | 14.8936 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | * | 99.1800 | 99.4837 | 98.8781 | 73.5318 | 16571 | 86 | 16569 | 188 | 28 | 14.8936 | |
| gduggal-snapplat | INDEL | D6_15 | map_l125_m2_e0 | * | 45.3591 | 31.7460 | 79.4118 | 95.4485 | 40 | 86 | 27 | 7 | 1 | 14.2857 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I16_PLUS | map_siren | * | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | D16_PLUS | map_l100_m2_e0 | * | 7.9208 | 4.4444 | 36.3636 | 95.3586 | 4 | 86 | 4 | 7 | 2 | 28.5714 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 54.3229 | 97.9257 | 37.5868 | 83.5805 | 4060 | 86 | 4112 | 6828 | 99 | 1.4499 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I16_PLUS | map_siren | * | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 66.9076 | 92.2101 | 52.5013 | 83.8765 | 1018 | 86 | 1039 | 940 | 100 | 10.6383 | |
| ghariani-varprowl | SNP | tv | map_l125_m1_e0 | het | 96.7384 | 99.1507 | 94.4408 | 79.1185 | 10040 | 86 | 10040 | 591 | 91 | 15.3976 | |
| ghariani-varprowl | SNP | tv | map_l125_m2_e0 | het | 96.7579 | 99.1764 | 94.4546 | 80.4692 | 10356 | 86 | 10356 | 608 | 93 | 15.2961 | |
| ghariani-varprowl | SNP | tv | map_l125_m2_e1 | het | 96.7733 | 99.1851 | 94.4760 | 80.5468 | 10467 | 86 | 10467 | 612 | 94 | 15.3595 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 52.7646 | 70.1389 | 42.2890 | 66.9445 | 202 | 86 | 436 | 595 | 310 | 52.1008 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 47.5592 | 44.5161 | 51.0490 | 71.9424 | 69 | 86 | 219 | 210 | 175 | 83.3333 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.8992 | 89.1688 | 99.1597 | 88.4671 | 708 | 86 | 708 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8006 | 99.6609 | 99.9407 | 54.5675 | 25273 | 86 | 25275 | 15 | 11 | 73.3333 | |
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5094 | 99.6893 | 99.3302 | 65.3964 | 27592 | 86 | 27582 | 186 | 18 | 9.6774 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.3834 | 97.8844 | 94.9277 | 48.0419 | 3979 | 86 | 4005 | 214 | 3 | 1.4019 | |
| ciseli-custom | INDEL | * | map_l250_m1_e0 | het | 57.5615 | 54.7368 | 60.6936 | 97.5902 | 104 | 86 | 105 | 68 | 32 | 47.0588 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e0 | homalt | 83.8286 | 85.9247 | 81.8323 | 83.8435 | 525 | 86 | 527 | 117 | 100 | 85.4701 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 91.7822 | 88.7139 | 95.0704 | 56.7337 | 676 | 86 | 675 | 35 | 23 | 65.7143 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 93.1635 | 90.0348 | 96.5174 | 56.7974 | 777 | 86 | 776 | 28 | 7 | 25.0000 | |
| egarrison-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.5362 | 98.1948 | 98.8800 | 67.3655 | 4678 | 86 | 4679 | 53 | 21 | 39.6226 | |
| egarrison-hhga | SNP | ti | map_siren | homalt | 99.8640 | 99.7732 | 99.9551 | 52.1965 | 37830 | 86 | 37830 | 17 | 15 | 88.2353 | |
| dgrover-gatk | INDEL | I1_5 | * | homalt | 99.7224 | 99.8577 | 99.5874 | 55.4630 | 60342 | 86 | 60347 | 250 | 246 | 98.4000 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | * | 98.6793 | 98.2053 | 99.1579 | 57.8639 | 4706 | 86 | 4710 | 40 | 39 | 97.5000 | |
| dgrover-gatk | SNP | * | map_l250_m1_e0 | het | 98.0059 | 98.1914 | 97.8211 | 91.1588 | 4669 | 86 | 4669 | 104 | 24 | 23.0769 | |
| dgrover-gatk | SNP | * | map_l250_m2_e0 | het | 98.1270 | 98.3442 | 97.9107 | 91.4879 | 5108 | 86 | 5108 | 109 | 25 | 22.9358 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1639 | 98.4142 | 99.9251 | 72.5328 | 5337 | 86 | 5337 | 4 | 4 | 100.0000 | |