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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
34051-34100 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.9316 | 85.1852 | 95.2381 | 91.3223 | 23 | 4 | 20 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.9308 | 89.1078 | 90.7692 | 60.4401 | 769 | 94 | 767 | 78 | 76 | 97.4359 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.9292 | 85.2071 | 95.2055 | 89.4101 | 432 | 75 | 417 | 21 | 10 | 47.6190 | |
| gduggal-snapvard | INDEL | * | map_siren | homalt | 89.9289 | 83.0132 | 98.1015 | 71.6674 | 2204 | 451 | 2377 | 46 | 40 | 86.9565 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.9267 | 99.0645 | 82.3323 | 76.8153 | 2118 | 20 | 2111 | 453 | 345 | 76.1589 | |
| ckim-isaac | INDEL | * | segdup | hetalt | 89.9263 | 82.3077 | 99.0991 | 92.8479 | 107 | 23 | 110 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_siren | * | 89.9255 | 93.9643 | 86.2197 | 83.0558 | 3316 | 213 | 3729 | 596 | 269 | 45.1342 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e0 | het | 89.9225 | 87.8788 | 92.0635 | 96.0427 | 58 | 8 | 58 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l250_m2_e1 | het | 89.9225 | 87.8788 | 92.0635 | 96.1632 | 58 | 8 | 58 | 5 | 1 | 20.0000 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | het | 89.9219 | 98.1208 | 82.9876 | 89.4070 | 2193 | 42 | 2200 | 451 | 184 | 40.7982 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | het | 89.9163 | 82.9863 | 98.1092 | 85.7556 | 1395 | 286 | 1401 | 27 | 5 | 18.5185 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | hetalt | 89.9158 | 83.5821 | 97.2881 | 65.1300 | 280 | 55 | 287 | 8 | 5 | 62.5000 | |
| ckim-gatk | INDEL | * | map_l250_m2_e0 | het | 89.9123 | 97.6190 | 83.3333 | 97.6273 | 205 | 5 | 205 | 41 | 2 | 4.8781 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.9123 | 83.3333 | 97.6190 | 70.4225 | 455 | 91 | 451 | 11 | 8 | 72.7273 | |
| jli-custom | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 89.9123 | 83.3333 | 97.6190 | 91.8605 | 40 | 8 | 41 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 89.9101 | 86.7532 | 93.3054 | 91.0049 | 668 | 102 | 669 | 48 | 4 | 8.3333 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 89.9023 | 87.8981 | 92.0000 | 66.5924 | 138 | 19 | 138 | 12 | 11 | 91.6667 | |
| mlin-fermikit | INDEL | D6_15 | segdup | het | 89.9018 | 91.3043 | 88.5417 | 91.7241 | 84 | 8 | 85 | 11 | 10 | 90.9091 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.8990 | 91.7526 | 88.1188 | 95.6893 | 89 | 8 | 89 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.8990 | 91.7526 | 88.1188 | 92.8011 | 89 | 8 | 89 | 12 | 2 | 16.6667 | |
| gduggal-bwaplat | INDEL | * | HG002complexvar | het | 89.8971 | 82.6214 | 98.5779 | 61.4508 | 38181 | 8031 | 38126 | 550 | 282 | 51.2727 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.8965 | 92.6829 | 87.2727 | 88.8945 | 190 | 15 | 192 | 28 | 27 | 96.4286 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 89.8965 | 92.6829 | 87.2727 | 88.8945 | 190 | 15 | 192 | 28 | 27 | 96.4286 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 89.8955 | 81.6456 | 100.0000 | 37.2822 | 516 | 116 | 540 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.8936 | 85.5422 | 94.7115 | 86.1932 | 781 | 132 | 788 | 44 | 4 | 9.0909 | |
| anovak-vg | INDEL | D1_5 | map_l100_m2_e0 | homalt | 89.8935 | 85.7610 | 94.4444 | 82.5788 | 524 | 87 | 527 | 31 | 29 | 93.5484 | |
| ghariani-varprowl | INDEL | D1_5 | * | * | 89.8931 | 89.1478 | 90.6510 | 61.1738 | 130819 | 15925 | 130678 | 13477 | 11237 | 83.3791 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 89.8927 | 82.1104 | 99.3046 | 32.2337 | 1354 | 295 | 1428 | 10 | 10 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m1_e0 | * | 89.8876 | 91.9540 | 87.9121 | 92.2421 | 80 | 7 | 80 | 11 | 2 | 18.1818 | |
| gduggal-bwafb | INDEL | I6_15 | segdup | hetalt | 89.8876 | 88.8889 | 90.9091 | 91.2000 | 40 | 5 | 10 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 89.8876 | 81.6327 | 100.0000 | 31.0345 | 40 | 9 | 20 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D6_15 | segdup | hetalt | 89.8876 | 81.6327 | 100.0000 | 90.3509 | 40 | 9 | 11 | 0 | 0 | ||
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m1_e0 | * | 89.8876 | 91.9540 | 87.9121 | 95.3737 | 80 | 7 | 80 | 11 | 4 | 36.3636 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.8876 | 97.5610 | 83.3333 | 88.5167 | 40 | 1 | 40 | 8 | 7 | 87.5000 | |
| ckim-isaac | INDEL | I1_5 | * | hetalt | 89.8867 | 82.5636 | 98.6351 | 45.1097 | 9243 | 1952 | 9178 | 127 | 112 | 88.1890 | |
| gduggal-snapvard | SNP | * | HG002compoundhet | homalt | 89.8866 | 82.8510 | 98.2279 | 37.1566 | 8933 | 1849 | 7594 | 137 | 100 | 72.9927 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 89.8865 | 83.4416 | 97.4105 | 87.5446 | 1542 | 306 | 1768 | 47 | 35 | 74.4681 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 89.8860 | 81.7168 | 99.8700 | 38.3320 | 733 | 164 | 768 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e1 | het | 89.8854 | 97.6190 | 83.2872 | 93.5910 | 902 | 22 | 902 | 181 | 52 | 28.7293 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 89.8828 | 86.1111 | 94.0000 | 83.4437 | 93 | 15 | 94 | 6 | 2 | 33.3333 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 89.8810 | 81.7985 | 99.7358 | 39.7772 | 755 | 168 | 755 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m2_e0 | het | 89.8757 | 95.8333 | 84.6154 | 94.4622 | 46 | 2 | 44 | 8 | 2 | 25.0000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 89.8755 | 85.9451 | 94.1826 | 54.7512 | 56166 | 9185 | 55450 | 3425 | 2525 | 73.7226 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 89.8755 | 85.9451 | 94.1826 | 54.7512 | 56166 | 9185 | 55450 | 3425 | 2525 | 73.7226 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.8753 | 95.0578 | 85.2286 | 76.3056 | 904 | 47 | 727 | 126 | 44 | 34.9206 | |
| anovak-vg | INDEL | D1_5 | map_l100_m2_e1 | homalt | 89.8740 | 85.8065 | 94.3463 | 82.6911 | 532 | 88 | 534 | 32 | 29 | 90.6250 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 89.8734 | 81.6092 | 100.0000 | 99.8937 | 71 | 16 | 73 | 0 | 0 | ||
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 89.8707 | 91.9395 | 87.8929 | 91.5916 | 730 | 64 | 755 | 104 | 4 | 3.8462 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 89.8678 | 82.2581 | 99.0291 | 99.9257 | 102 | 22 | 102 | 1 | 0 | 0.0000 | |
| astatham-gatk | SNP | ti | map_l150_m0_e0 | het | 89.8677 | 82.0483 | 99.3346 | 85.7819 | 4182 | 915 | 4180 | 28 | 9 | 32.1429 | |