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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10551-10600 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2214 | 99.5485 | 98.8965 | 52.5869 | 11245 | 51 | 19268 | 215 | 45 | 20.9302 | |
| qzeng-custom | INDEL | * | map_l125_m1_e0 | * | 82.7094 | 73.9440 | 93.8324 | 91.4171 | 1558 | 549 | 1993 | 131 | 45 | 34.3511 | |
| jpowers-varprowl | INDEL | D6_15 | segdup | het | 74.3119 | 88.0435 | 64.2857 | 94.1066 | 81 | 11 | 81 | 45 | 45 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1341 | 96.7259 | 99.5838 | 73.0521 | 15067 | 510 | 15075 | 63 | 45 | 71.4286 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0456 | 99.3353 | 98.7576 | 71.4856 | 3736 | 25 | 3736 | 47 | 45 | 95.7447 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0456 | 99.3353 | 98.7576 | 71.4856 | 3736 | 25 | 3736 | 47 | 45 | 95.7447 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.1392 | 99.9176 | 96.4229 | 55.6886 | 1213 | 1 | 1213 | 45 | 45 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | het | 85.9916 | 77.4251 | 96.6894 | 86.7577 | 16418 | 4787 | 16414 | 562 | 45 | 8.0071 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.2887 | 100.0000 | 61.6667 | 83.5391 | 169 | 0 | 74 | 46 | 45 | 97.8261 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8903 | 96.4792 | 99.3433 | 38.3411 | 9125 | 333 | 9076 | 60 | 45 | 75.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8957 | 98.4694 | 99.3257 | 54.3646 | 19558 | 304 | 19592 | 133 | 45 | 33.8346 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 73.3937 | 95.8580 | 59.4595 | 79.8913 | 162 | 7 | 66 | 45 | 45 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.0484 | 99.6364 | 94.5915 | 70.0964 | 822 | 3 | 822 | 47 | 45 | 95.7447 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.0484 | 99.6364 | 94.5915 | 70.0964 | 822 | 3 | 822 | 47 | 45 | 95.7447 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | * | 98.0795 | 97.8917 | 98.2680 | 78.2094 | 4086 | 88 | 4085 | 72 | 45 | 62.5000 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 93.8487 | 92.3001 | 95.4501 | 48.4274 | 935 | 78 | 986 | 47 | 45 | 95.7447 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 76.2700 | 83.0508 | 70.5128 | 33.8983 | 49 | 10 | 110 | 46 | 45 | 97.8261 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.5830 | 94.5931 | 94.5728 | 62.5553 | 1732 | 99 | 1760 | 101 | 45 | 44.5545 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | homalt | 91.2106 | 84.4078 | 99.2060 | 60.5879 | 7633 | 1410 | 7622 | 61 | 45 | 73.7705 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002complexvar | * | 99.6940 | 99.5564 | 99.8319 | 56.9171 | 33215 | 148 | 33263 | 56 | 45 | 80.3571 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7852 | 99.3209 | 96.2963 | 73.0778 | 1170 | 8 | 1170 | 45 | 45 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0587 | 99.3353 | 98.7837 | 71.2941 | 3736 | 25 | 3736 | 46 | 45 | 97.8261 | |
| 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 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0587 | 99.3353 | 98.7837 | 71.2941 | 3736 | 25 | 3736 | 46 | 45 | 97.8261 | |
| hfeng-pmm3 | INDEL | D6_15 | * | homalt | 99.3845 | 99.5416 | 99.2279 | 50.7795 | 6297 | 29 | 6297 | 49 | 45 | 91.8367 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | homalt | 51.0638 | 100.0000 | 34.2857 | 66.3462 | 24 | 0 | 24 | 46 | 45 | 97.8261 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0206 | 99.3362 | 98.7071 | 54.3318 | 3741 | 25 | 3741 | 49 | 45 | 91.8367 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0206 | 99.3362 | 98.7071 | 54.3318 | 3741 | 25 | 3741 | 49 | 45 | 91.8367 | |
| hfeng-pmm3 | INDEL | I16_PLUS | * | homalt | 98.1968 | 99.4234 | 97.0000 | 68.6397 | 1552 | 9 | 1552 | 48 | 45 | 93.7500 | |
| hfeng-pmm3 | INDEL | I16_PLUS | HG002compoundhet | * | 95.0875 | 92.5805 | 97.7340 | 52.1790 | 1984 | 159 | 1984 | 46 | 45 | 97.8261 | |
| hfeng-pmm3 | SNP | * | * | homalt | 99.9916 | 99.9889 | 99.9942 | 17.9575 | 1180030 | 131 | 1180013 | 68 | 45 | 66.1765 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0521 | 96.8708 | 99.2627 | 50.9309 | 6470 | 209 | 6462 | 48 | 45 | 93.7500 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1552 | 98.5347 | 99.7836 | 72.0617 | 32749 | 487 | 32742 | 71 | 45 | 63.3803 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.3676 | 90.9984 | 91.7399 | 68.5635 | 556 | 55 | 522 | 47 | 45 | 95.7447 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | hetalt | 94.4661 | 92.3817 | 96.6468 | 71.8658 | 1249 | 103 | 1297 | 45 | 45 | 100.0000 | |
| ciseli-custom | INDEL | * | map_l150_m0_e0 | het | 64.8517 | 61.2903 | 68.8525 | 95.2903 | 209 | 132 | 210 | 95 | 45 | 47.3684 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 25.1366 | 95.2847 | 0 | 0 | 46 | 137 | 45 | 32.8467 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 0.0000 | 0.0000 | 16.7513 | 92.3465 | 0 | 0 | 33 | 164 | 45 | 27.4390 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 77.0060 | 92.0824 | 66.1719 | 76.4316 | 849 | 73 | 847 | 433 | 45 | 10.3926 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 21.4286 | 39.1304 | 14.7541 | 76.8939 | 9 | 14 | 9 | 52 | 45 | 86.5385 | |
| ckim-dragen | SNP | tv | map_l100_m1_e0 | * | 98.6576 | 99.2817 | 98.0414 | 69.3325 | 24325 | 176 | 24328 | 486 | 45 | 9.2593 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | * | 98.6448 | 99.2929 | 98.0051 | 71.3118 | 24856 | 177 | 24859 | 506 | 45 | 8.8933 | |
| ckim-dragen | SNP | tv | map_l100_m2_e1 | * | 98.6522 | 99.2920 | 98.0206 | 71.3656 | 25104 | 179 | 25107 | 507 | 45 | 8.8757 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2889 | 98.3993 | 98.1788 | 72.3290 | 3504 | 57 | 3504 | 65 | 45 | 69.2308 | |
| cchapple-custom | INDEL | D16_PLUS | HG002complexvar | * | 94.5754 | 92.5746 | 96.6646 | 59.3502 | 1521 | 122 | 1536 | 53 | 45 | 84.9057 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.3139 | 89.5894 | 97.3615 | 44.5095 | 2160 | 251 | 2214 | 60 | 45 | 75.0000 | |
| ckim-gatk | SNP | ti | map_l125_m2_e0 | * | 85.0542 | 75.0248 | 98.1789 | 84.5122 | 22701 | 7557 | 22697 | 421 | 45 | 10.6888 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1950 | 75.2331 | 98.1978 | 84.5085 | 22998 | 7571 | 22994 | 422 | 45 | 10.6635 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m2_e1 | * | 89.7320 | 94.9153 | 85.0856 | 90.9633 | 504 | 27 | 696 | 122 | 45 | 36.8852 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 57.3256 | 86.6375 | 42.8337 | 90.6835 | 791 | 122 | 783 | 1045 | 45 | 4.3062 | |