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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73401-73450 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.8361 | 88.2463 | 97.9296 | 62.5291 | 473 | 63 | 473 | 10 | 9 | 90.0000 | |
| jlack-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 94.9037 | 90.3820 | 99.9017 | 57.2515 | 10102 | 1075 | 10162 | 10 | 9 | 90.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | homalt | 99.4885 | 99.8289 | 99.1504 | 61.5359 | 1167 | 2 | 1167 | 10 | 9 | 90.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6271 | 96.4286 | 98.8558 | 65.7524 | 1728 | 64 | 1728 | 20 | 18 | 90.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0004 | 93.9245 | 96.1014 | 81.4130 | 572 | 37 | 493 | 20 | 18 | 90.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.5775 | 66.5710 | 95.8678 | 49.7925 | 464 | 233 | 464 | 20 | 18 | 90.0000 | |
| jlack-gatk | SNP | tv | HG002compoundhet | homalt | 99.7638 | 99.8229 | 99.7048 | 42.2900 | 3382 | 6 | 3377 | 10 | 9 | 90.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.4114 | 96.3910 | 96.4318 | 79.9786 | 1282 | 48 | 1081 | 40 | 36 | 90.0000 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | homalt | 99.9769 | 99.9643 | 99.9895 | 22.8756 | 95077 | 34 | 95069 | 10 | 9 | 90.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.1948 | 98.5039 | 99.8954 | 68.1029 | 9547 | 145 | 9547 | 10 | 9 | 90.0000 | |
| astatham-gatk | SNP | * | map_l150_m0_e0 | homalt | 98.8775 | 98.0191 | 99.7511 | 73.7506 | 4008 | 81 | 4008 | 10 | 9 | 90.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0756 | 95.4082 | 98.8024 | 34.2002 | 748 | 36 | 825 | 10 | 9 | 90.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.3750 | 95.5710 | 99.2485 | 52.6679 | 6603 | 306 | 6603 | 50 | 45 | 90.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4723 | 99.6037 | 99.3412 | 88.4492 | 1508 | 6 | 1508 | 10 | 9 | 90.0000 | |
| bgallagher-sentieon | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6324 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.4103 | 97.9167 | 94.9495 | 46.7742 | 188 | 4 | 188 | 10 | 9 | 90.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.2241 | 93.9024 | 83.1933 | 72.9545 | 77 | 5 | 99 | 20 | 18 | 90.0000 | |
| jmaeng-gatk | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6806 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.7542 | 99.0148 | 94.5946 | 84.0288 | 603 | 6 | 525 | 30 | 27 | 90.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.4879 | 96.2662 | 96.7105 | 67.7111 | 593 | 23 | 588 | 20 | 18 | 90.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1967 | 95.2767 | 97.1347 | 75.0892 | 706 | 35 | 678 | 20 | 18 | 90.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002complexvar | * | 98.2253 | 97.2498 | 99.2206 | 67.1110 | 1273 | 36 | 1273 | 10 | 9 | 90.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 55.4033 | 40.0000 | 90.0990 | 78.7815 | 92 | 138 | 91 | 10 | 9 | 90.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.8841 | 77.2727 | 96.6555 | 54.2113 | 289 | 85 | 289 | 10 | 9 | 90.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 46.5116 | 43.4783 | 50.0000 | 85.0746 | 10 | 13 | 10 | 10 | 9 | 90.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 47.6190 | 45.4545 | 50.0000 | 81.1321 | 10 | 12 | 10 | 10 | 9 | 90.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 68.5714 | 61.0169 | 78.2609 | 60.6838 | 36 | 23 | 36 | 10 | 9 | 90.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | * | 96.2411 | 93.4780 | 99.1726 | 30.6557 | 8442 | 589 | 8390 | 70 | 63 | 90.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.8006 | 90.6323 | 99.3707 | 28.9674 | 1548 | 160 | 1579 | 10 | 9 | 90.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4634 | 89.3657 | 97.9550 | 62.9826 | 479 | 57 | 479 | 10 | 9 | 90.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.6583 | 87.5470 | 98.4034 | 64.1001 | 1863 | 265 | 1849 | 30 | 27 | 90.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | * | homalt | 99.7038 | 99.4298 | 99.9794 | 54.3049 | 48647 | 279 | 48525 | 10 | 9 | 90.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.7383 | 95.2537 | 98.2699 | 61.6457 | 582 | 29 | 568 | 10 | 9 | 90.0000 | |
| ckim-vqsr | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6950 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| egarrison-hhga | SNP | tv | map_siren | homalt | 99.8636 | 99.7854 | 99.9419 | 55.8765 | 17203 | 37 | 17203 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 73.2771 | 59.8485 | 94.4751 | 88.1311 | 79 | 53 | 171 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 9.9949 | 5.3085 | 85.2941 | 78.6164 | 37 | 660 | 58 | 10 | 9 | 90.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3545 | 97.0864 | 89.8990 | 74.7771 | 933 | 28 | 890 | 100 | 90 | 90.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.6182 | 51.4052 | 98.7700 | 39.3736 | 878 | 830 | 803 | 10 | 9 | 90.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.1147 | 86.7089 | 98.2394 | 38.2609 | 548 | 84 | 558 | 10 | 9 | 90.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 87.1538 | 78.6792 | 97.6744 | 47.9419 | 417 | 113 | 420 | 10 | 9 | 90.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.3636 | 87.5000 | 67.7419 | 76.6917 | 21 | 3 | 21 | 10 | 9 | 90.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3268 | 94.9581 | 99.8166 | 57.9977 | 5443 | 289 | 5444 | 10 | 9 | 90.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3727 | 99.4055 | 99.3399 | 88.6347 | 1505 | 9 | 1505 | 10 | 9 | 90.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 69.4728 | 78.5200 | 62.2951 | 44.9448 | 3491 | 955 | 7334 | 4439 | 3996 | 90.0203 | |
| ckim-dragen | INDEL | D6_15 | * | * | 97.9198 | 97.6928 | 98.1478 | 56.3201 | 25490 | 602 | 25488 | 481 | 433 | 90.0208 | |
| mlin-fermikit | SNP | ti | map_l100_m0_e0 | * | 60.1229 | 46.0705 | 86.5103 | 52.4193 | 10030 | 11741 | 10030 | 1564 | 1408 | 90.0256 | |
| 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 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e1 | homalt | 68.2473 | 94.1176 | 53.5326 | 86.8477 | 192 | 12 | 197 | 171 | 154 | 90.0585 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 55.2529 | 51.8248 | 59.1667 | 72.9556 | 497 | 462 | 497 | 343 | 309 | 90.0875 | |