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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
44201-44250 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 77.5159 | 76.4592 | 78.6021 | 48.9675 | 5148 | 1585 | 5128 | 1396 | 1280 | 91.6905 | |
| ckim-gatk | SNP | ti | map_l150_m2_e1 | het | 85.5750 | 76.4656 | 97.1484 | 89.9190 | 9952 | 3063 | 9948 | 292 | 33 | 11.3014 | |
| gduggal-snapplat | INDEL | I1_5 | * | homalt | 83.6103 | 76.4695 | 92.2220 | 62.8436 | 46209 | 14219 | 46704 | 3939 | 356 | 9.0378 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 86.6667 | 76.4706 | 100.0000 | 99.4338 | 13 | 4 | 13 | 0 | 0 | ||
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 11.7249 | 76.4706 | 6.3492 | 79.5676 | 13 | 4 | 12 | 177 | 2 | 1.1299 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1817 | 76.4706 | 88.8147 | 52.8718 | 533 | 164 | 532 | 67 | 66 | 98.5075 | |
| cchapple-custom | INDEL | I6_15 | map_l100_m0_e0 | het | 82.2134 | 76.4706 | 88.8889 | 93.3824 | 13 | 4 | 16 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | map_l150_m2_e0 | * | 83.8710 | 76.4706 | 92.8571 | 91.5663 | 13 | 4 | 13 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m1_e0 | hetalt | 85.1296 | 76.4706 | 96.0000 | 92.3077 | 13 | 4 | 24 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m0_e0 | het | 81.4747 | 76.4706 | 87.1795 | 78.5714 | 13 | 4 | 34 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 84.5429 | 76.4706 | 94.5205 | 47.1014 | 65 | 20 | 69 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | map_siren | homalt | 85.2459 | 76.4706 | 96.2963 | 87.8378 | 26 | 8 | 26 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 86.6667 | 76.4706 | 100.0000 | 95.1493 | 13 | 4 | 13 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 76.5913 | 76.4706 | 76.7123 | 99.5989 | 13 | 4 | 56 | 17 | 14 | 82.3529 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1817 | 76.4706 | 88.8147 | 52.8718 | 533 | 164 | 532 | 67 | 66 | 98.5075 | |
| hfeng-pmm3 | INDEL | I6_15 | map_l100_m0_e0 | het | 83.8710 | 76.4706 | 92.8571 | 91.8129 | 13 | 4 | 13 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l100_m0_e0 | het | 83.8710 | 76.4706 | 92.8571 | 93.3333 | 13 | 4 | 13 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | tech_badpromoters | * | 83.8710 | 76.4706 | 92.8571 | 56.2500 | 13 | 4 | 13 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.7303 | 76.4706 | 57.6355 | 72.3810 | 117 | 36 | 117 | 86 | 73 | 84.8837 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.4706 | 76.4706 | 76.4706 | 97.8454 | 13 | 4 | 13 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_l100_m0_e0 | het | 86.6667 | 76.4706 | 100.0000 | 85.7143 | 13 | 4 | 13 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I6_15 | map_l100_m0_e0 | het | 83.8710 | 76.4706 | 92.8571 | 81.5789 | 13 | 4 | 13 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l150_m2_e0 | * | 60.4651 | 76.4706 | 50.0000 | 94.0774 | 13 | 4 | 13 | 13 | 2 | 15.3846 | |
| mlin-fermikit | INDEL | D16_PLUS | map_siren | homalt | 59.7701 | 76.4706 | 49.0566 | 94.4906 | 26 | 8 | 26 | 27 | 6 | 22.2222 | |
| mlin-fermikit | INDEL | D6_15 | map_l125_m1_e0 | homalt | 78.7879 | 76.4706 | 81.2500 | 88.3636 | 26 | 8 | 26 | 6 | 6 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 67.9335 | 76.4706 | 61.1111 | 99.5774 | 13 | 4 | 11 | 7 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 49.6649 | 76.4706 | 36.7742 | 94.0316 | 52 | 16 | 57 | 98 | 4 | 4.0816 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m1_e0 | hetalt | 86.6667 | 76.4706 | 100.0000 | 91.4474 | 13 | 4 | 13 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D16_PLUS | map_siren | homalt | 83.8710 | 76.4706 | 92.8571 | 87.8788 | 26 | 8 | 26 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.5469 | 76.4799 | 68.9986 | 69.9494 | 23308 | 7168 | 24351 | 10941 | 4932 | 45.0781 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.5469 | 76.4799 | 68.9986 | 69.9494 | 23308 | 7168 | 24351 | 10941 | 4932 | 45.0781 | |
| ciseli-custom | SNP | * | map_l125_m1_e0 | * | 80.8628 | 76.5085 | 85.7426 | 76.0516 | 34679 | 10648 | 34610 | 5755 | 1482 | 25.7515 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.5129 | 76.5088 | 96.9190 | 34.7374 | 3651 | 1121 | 3649 | 116 | 114 | 98.2759 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 71.7034 | 76.5182 | 67.4586 | 62.2452 | 3402 | 1044 | 3748 | 1808 | 1171 | 64.7677 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 83.9960 | 76.5257 | 93.0825 | 45.8976 | 7110 | 2181 | 2449 | 182 | 112 | 61.5385 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 83.9960 | 76.5257 | 93.0825 | 45.8976 | 7110 | 2181 | 2449 | 182 | 112 | 61.5385 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 86.6043 | 76.5298 | 99.7333 | 31.0028 | 3652 | 1120 | 1496 | 4 | 4 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 84.4285 | 76.5337 | 94.1394 | 56.8627 | 4067 | 1247 | 4080 | 254 | 153 | 60.2362 | |
| qzeng-custom | INDEL | * | HG002compoundhet | hetalt | 86.4434 | 76.5369 | 99.2955 | 48.8192 | 19272 | 5908 | 5638 | 40 | 29 | 72.5000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 84.0543 | 76.5381 | 93.2075 | 68.0466 | 734 | 225 | 741 | 54 | 46 | 85.1852 | |
| qzeng-custom | SNP | tv | map_siren | hetalt | 86.0912 | 76.5432 | 98.3607 | 83.9474 | 62 | 19 | 60 | 1 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | map_siren | hetalt | 86.0912 | 76.5432 | 98.3607 | 83.9474 | 62 | 19 | 60 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | * | hetalt | 86.3714 | 76.5503 | 99.0835 | 60.3958 | 19319 | 5918 | 5730 | 53 | 41 | 77.3585 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 86.4817 | 76.5507 | 99.3735 | 30.6252 | 2024 | 620 | 2062 | 13 | 11 | 84.6154 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 79.2133 | 76.5550 | 82.0628 | 67.6812 | 160 | 49 | 183 | 40 | 33 | 82.5000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 80.4772 | 76.5586 | 84.8185 | 64.9306 | 307 | 94 | 257 | 46 | 29 | 63.0435 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.1862 | 76.5690 | 98.5663 | 43.2350 | 549 | 168 | 550 | 8 | 5 | 62.5000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.1852 | 76.5690 | 98.5637 | 61.2117 | 549 | 168 | 549 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.9048 | 76.5734 | 97.8261 | 53.6290 | 219 | 67 | 225 | 5 | 5 | 100.0000 | |