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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19501-19550 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.4286 | 91.2173 | 91.6409 | 57.2469 | 592 | 57 | 592 | 54 | 52 | 96.2963 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.0370 | 96.2351 | 76.1733 | 88.6760 | 1457 | 57 | 1477 | 462 | 66 | 14.2857 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9487 | 98.5441 | 99.3567 | 82.1497 | 3858 | 57 | 3861 | 25 | 16 | 64.0000 | |
| gduggal-bwafb | SNP | * | map_l250_m0_e0 | het | 96.5356 | 96.2151 | 96.8583 | 93.6158 | 1449 | 57 | 1449 | 47 | 13 | 27.6596 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 90.8367 | 84.7594 | 97.8528 | 60.4848 | 317 | 57 | 319 | 7 | 7 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002complexvar | homalt | 87.5090 | 81.5534 | 94.4030 | 66.1616 | 252 | 57 | 253 | 15 | 14 | 93.3333 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 66.7081 | 53.2787 | 89.1892 | 86.8093 | 65 | 57 | 66 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | homalt | 78.8406 | 82.6748 | 75.3463 | 87.5988 | 272 | 57 | 272 | 89 | 78 | 87.6404 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.6590 | 71.5000 | 97.9452 | 72.2960 | 143 | 57 | 143 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.4522 | 95.3431 | 99.6567 | 58.4374 | 1167 | 57 | 1161 | 4 | 3 | 75.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8754 | 99.0250 | 98.7263 | 71.7769 | 5789 | 57 | 5736 | 74 | 67 | 90.5405 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8754 | 99.0250 | 98.7263 | 71.7769 | 5789 | 57 | 5736 | 74 | 67 | 90.5405 | |
| ckim-gatk | INDEL | I1_5 | HG002complexvar | het | 99.7716 | 99.6866 | 99.8566 | 58.0913 | 18132 | 57 | 18110 | 26 | 13 | 50.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6384 | 95.7207 | 99.6345 | 39.6588 | 1275 | 57 | 5180 | 19 | 17 | 89.4737 | |
| cchapple-custom | SNP | ti | map_l250_m0_e0 | het | 95.0637 | 93.8972 | 96.2596 | 94.5783 | 877 | 57 | 875 | 34 | 12 | 35.2941 | |
| ciseli-custom | INDEL | * | map_l250_m1_e0 | homalt | 59.4286 | 47.7064 | 78.7879 | 96.7977 | 52 | 57 | 52 | 14 | 8 | 57.1429 | |
| ciseli-custom | SNP | * | segdup | homalt | 98.3606 | 99.4694 | 97.2762 | 88.7149 | 10686 | 57 | 10607 | 297 | 168 | 56.5657 | |
| 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 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9033 | 99.2281 | 98.5807 | 59.2778 | 7327 | 57 | 7293 | 105 | 100 | 95.2381 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6249 | 99.5200 | 99.7301 | 51.4696 | 11818 | 57 | 11823 | 32 | 15 | 46.8750 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m0_e0 | * | 61.3333 | 44.6602 | 97.8723 | 88.9412 | 46 | 57 | 46 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 68.5714 | 57.1429 | 85.7143 | 76.6667 | 76 | 57 | 78 | 13 | 9 | 69.2308 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.0576 | 66.0714 | 89.6000 | 69.0594 | 111 | 57 | 112 | 13 | 4 | 30.7692 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.1245 | 94.5714 | 97.7295 | 52.4859 | 993 | 57 | 990 | 23 | 9 | 39.1304 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.1550 | 91.2173 | 95.1768 | 58.7259 | 592 | 57 | 592 | 30 | 23 | 76.6667 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8850 | 98.5441 | 99.2284 | 79.4839 | 3858 | 57 | 3858 | 30 | 23 | 76.6667 | |
| egarrison-hhga | SNP | * | map_l250_m0_e0 | het | 97.6415 | 96.2151 | 99.1108 | 92.9345 | 1449 | 57 | 1449 | 13 | 3 | 23.0769 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.7140 | 98.1541 | 99.2803 | 63.6850 | 3031 | 57 | 3035 | 22 | 10 | 45.4545 | |
| egarrison-hhga | INDEL | * | segdup | * | 97.9435 | 97.7700 | 98.1176 | 98.6833 | 2499 | 57 | 2502 | 48 | 36 | 75.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.6791 | 72.3301 | 88.6905 | 83.5616 | 149 | 57 | 149 | 19 | 11 | 57.8947 | |
| ckim-isaac | SNP | * | HG002compoundhet | hetalt | 96.5807 | 93.3875 | 100.0000 | 18.9325 | 805 | 57 | 805 | 0 | 0 | ||
| ckim-isaac | SNP | tv | HG002compoundhet | hetalt | 96.5807 | 93.3875 | 100.0000 | 18.9325 | 805 | 57 | 805 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | * | 96.2276 | 95.9517 | 96.5050 | 93.5044 | 1351 | 57 | 1353 | 49 | 6 | 12.2449 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 70.4663 | 54.4000 | 100.0000 | 33.0000 | 68 | 57 | 67 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7762 | 99.6141 | 99.9389 | 56.2917 | 14713 | 57 | 14715 | 9 | 1 | 11.1111 | |
| ckim-vqsr | INDEL | D1_5 | map_siren | het | 97.8636 | 97.4967 | 98.2332 | 85.9953 | 2220 | 57 | 2224 | 40 | 2 | 5.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8227 | 99.5014 | 98.1531 | 44.9941 | 11376 | 57 | 11373 | 214 | 2 | 0.9346 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.5924 | 80.0699 | 99.1453 | 49.0196 | 229 | 57 | 232 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.0809 | 95.6851 | 98.5179 | 60.2481 | 1264 | 57 | 1263 | 19 | 15 | 78.9474 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e1 | homalt | 98.7018 | 97.9029 | 99.5138 | 87.8305 | 2661 | 57 | 2661 | 13 | 13 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.1070 | 95.3734 | 98.9048 | 56.9460 | 1175 | 57 | 1174 | 13 | 12 | 92.3077 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.7383 | 91.7031 | 97.9814 | 80.1296 | 630 | 57 | 631 | 13 | 8 | 61.5385 | |
| raldana-dualsentieon | SNP | * | map_l250_m0_e0 | * | 97.3302 | 97.3302 | 97.3302 | 91.9586 | 2078 | 57 | 2078 | 57 | 3 | 5.2632 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7077 | 99.6531 | 99.7624 | 58.0995 | 16372 | 57 | 16373 | 39 | 28 | 71.7949 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.8866 | 96.2401 | 99.5904 | 67.7099 | 1459 | 57 | 1459 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | INDEL | D1_5 | * | homalt | 99.8825 | 99.8835 | 99.8815 | 58.1721 | 48869 | 57 | 48874 | 58 | 56 | 96.5517 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | hetalt | 97.7751 | 95.7840 | 99.8506 | 73.3373 | 1295 | 57 | 1337 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | het | 98.4237 | 97.9029 | 98.9501 | 74.4344 | 2661 | 57 | 2639 | 28 | 4 | 14.2857 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8868 | 97.0512 | 98.7368 | 59.9494 | 1876 | 57 | 1876 | 24 | 23 | 95.8333 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.8619 | 95.7143 | 94.0246 | 80.9444 | 1273 | 57 | 1070 | 68 | 57 | 83.8235 | |