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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47901-47950 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | * | 83.7200 | 78.4062 | 89.8065 | 94.3591 | 610 | 168 | 696 | 79 | 18 | 22.7848 | |
| ghariani-varprowl | INDEL | I1_5 | tech_badpromoters | * | 83.7209 | 81.8182 | 85.7143 | 60.3774 | 18 | 4 | 18 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | func_cds | * | 83.7209 | 83.7209 | 83.7209 | 37.6812 | 36 | 7 | 36 | 7 | 7 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | tech_badpromoters | * | 83.7209 | 81.8182 | 85.7143 | 56.2500 | 18 | 4 | 18 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 83.7209 | 87.8049 | 80.0000 | 82.0000 | 36 | 5 | 36 | 9 | 4 | 44.4444 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | het | 83.7221 | 81.0345 | 86.5942 | 94.7283 | 423 | 99 | 478 | 74 | 17 | 22.9730 | |
| qzeng-custom | SNP | * | map_l125_m2_e1 | homalt | 83.7240 | 72.4219 | 99.2062 | 67.7495 | 12697 | 4835 | 12498 | 100 | 99 | 99.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m1_e0 | het | 83.7248 | 98.3402 | 72.8916 | 90.7572 | 474 | 8 | 605 | 225 | 50 | 22.2222 | |
| asubramanian-gatk | INDEL | * | map_l250_m2_e1 | het | 83.7321 | 82.9384 | 84.5411 | 97.5144 | 175 | 36 | 175 | 32 | 3 | 9.3750 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 83.7356 | 73.4530 | 97.3658 | 70.5818 | 11787 | 4260 | 11791 | 319 | 236 | 73.9812 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_l100_m2_e1 | * | 83.7401 | 81.4433 | 86.1702 | 87.8866 | 79 | 18 | 81 | 13 | 6 | 46.1538 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.7423 | 78.1955 | 90.1361 | 42.6621 | 1040 | 290 | 1060 | 116 | 85 | 73.2759 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.7447 | 84.4675 | 83.0341 | 89.9808 | 5623 | 1034 | 5643 | 1153 | 77 | 6.6782 | |
| gduggal-bwaplat | INDEL | I6_15 | map_siren | homalt | 83.7500 | 74.4444 | 95.7143 | 85.5372 | 67 | 23 | 67 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e0 | hetalt | 83.7547 | 75.2000 | 94.5055 | 89.4798 | 94 | 31 | 86 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | het | 83.7549 | 91.3043 | 77.3585 | 95.9726 | 42 | 4 | 41 | 12 | 4 | 33.3333 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e0 | het | 83.7572 | 96.0460 | 74.2562 | 90.2596 | 1336 | 55 | 1872 | 649 | 258 | 39.7535 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e1 | * | 83.7577 | 72.3674 | 99.4034 | 80.9971 | 35811 | 13674 | 35822 | 215 | 67 | 31.1628 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.7592 | 72.2584 | 99.6141 | 35.3161 | 1555 | 597 | 1549 | 6 | 4 | 66.6667 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | * | 83.7635 | 78.4798 | 89.8099 | 48.6609 | 4161 | 1141 | 4063 | 461 | 184 | 39.9132 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | homalt | 83.7687 | 85.9677 | 81.6794 | 83.9066 | 533 | 87 | 535 | 120 | 103 | 85.8333 | |
| anovak-vg | SNP | * | map_l250_m1_e0 | homalt | 83.7735 | 72.4320 | 99.3262 | 87.5733 | 1784 | 679 | 1769 | 12 | 8 | 66.6667 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 83.7745 | 72.9412 | 98.3871 | 66.6667 | 62 | 23 | 61 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | homalt | 83.7803 | 99.6960 | 72.2467 | 88.6301 | 328 | 1 | 328 | 126 | 125 | 99.2063 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.7838 | 73.8095 | 96.8750 | 97.3222 | 31 | 11 | 31 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 83.7838 | 72.0930 | 100.0000 | 72.0000 | 62 | 24 | 63 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 66.3759 | 1406 | 480 | 1401 | 64 | 53 | 82.8125 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 65.9144 | 1406 | 480 | 1401 | 64 | 57 | 89.0625 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.7867 | 78.5714 | 89.7436 | 95.4064 | 33 | 9 | 35 | 4 | 1 | 25.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.7882 | 96.6046 | 73.9742 | 88.0348 | 882 | 31 | 631 | 222 | 19 | 8.5586 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.7908 | 73.3408 | 97.7136 | 42.2636 | 5216 | 1896 | 5214 | 122 | 120 | 98.3607 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7908 | 82.8571 | 84.7458 | 75.8197 | 29 | 6 | 50 | 9 | 3 | 33.3333 | |
| gduggal-snapplat | SNP | * | map_l250_m0_e0 | * | 83.7909 | 76.0187 | 93.3333 | 96.5523 | 1623 | 512 | 1624 | 116 | 43 | 37.0690 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e1 | het | 83.7912 | 96.0938 | 74.2812 | 90.3789 | 1353 | 55 | 1886 | 653 | 259 | 39.6631 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 83.7918 | 78.7037 | 89.5833 | 87.3850 | 85 | 23 | 86 | 10 | 6 | 60.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 83.7927 | 80.8511 | 86.9565 | 77.0000 | 38 | 9 | 40 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.7981 | 89.6100 | 78.6942 | 72.7931 | 5468 | 634 | 5496 | 1488 | 1452 | 97.5806 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 83.7989 | 78.9474 | 89.2857 | 81.8182 | 15 | 4 | 25 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m1_e0 | homalt | 83.8037 | 72.1438 | 99.9590 | 65.3578 | 19481 | 7522 | 19481 | 8 | 8 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | segdup | homalt | 83.8070 | 77.3784 | 91.4005 | 94.4573 | 366 | 107 | 372 | 35 | 2 | 5.7143 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e0 | * | 83.8096 | 78.5059 | 89.8817 | 94.3466 | 599 | 164 | 684 | 77 | 18 | 23.3766 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 83.8108 | 77.6224 | 91.0714 | 91.0328 | 111 | 32 | 102 | 10 | 3 | 30.0000 | |
| anovak-vg | SNP | tv | map_siren | het | 83.8130 | 92.8414 | 76.3848 | 65.0646 | 26561 | 2048 | 26517 | 8198 | 1714 | 20.9075 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.8170 | 96.5624 | 74.0438 | 56.3581 | 3736 | 133 | 4259 | 1493 | 1471 | 98.5265 | |
| qzeng-custom | SNP | tv | map_l125_m1_e0 | homalt | 83.8172 | 72.6621 | 99.0185 | 65.9234 | 4258 | 1602 | 4237 | 42 | 42 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 83.8207 | 76.4233 | 92.8036 | 43.9496 | 1141 | 352 | 619 | 48 | 37 | 77.0833 | |
| qzeng-custom | INDEL | D6_15 | map_l125_m2_e1 | * | 83.8208 | 83.5938 | 84.0491 | 91.4391 | 107 | 21 | 137 | 26 | 6 | 23.0769 | |
| qzeng-custom | INDEL | D16_PLUS | * | homalt | 83.8251 | 97.1040 | 73.7410 | 65.8948 | 1643 | 49 | 1640 | 584 | 105 | 17.9795 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 83.8258 | 90.7659 | 77.8716 | 35.7639 | 2074 | 211 | 2305 | 655 | 476 | 72.6718 | |
| gduggal-snapfb | INDEL | D6_15 | func_cds | het | 83.8269 | 79.3103 | 88.8889 | 40.0000 | 23 | 6 | 24 | 3 | 3 | 100.0000 | |