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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17051-17100 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8372 | 98.8372 | 98.8372 | 62.4454 | 255 | 3 | 255 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8372 | 98.8372 | 98.8372 | 63.5593 | 255 | 3 | 255 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.0612 | 98.8372 | 97.2973 | 63.6236 | 255 | 3 | 252 | 7 | 7 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.2218 | 98.8372 | 99.6094 | 86.6736 | 255 | 3 | 255 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | HG002compoundhet | het | 99.2949 | 98.8362 | 99.7579 | 46.8998 | 14013 | 165 | 14011 | 34 | 28 | 82.3529 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | het | 98.9259 | 98.8361 | 99.0157 | 75.7529 | 20126 | 237 | 20120 | 200 | 117 | 58.5000 | |
| jli-custom | SNP | * | map_l125_m2_e1 | het | 99.0901 | 98.8360 | 99.3454 | 70.6523 | 29295 | 345 | 29292 | 193 | 54 | 27.9793 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2861 | 98.8357 | 99.7406 | 78.6722 | 764 | 9 | 769 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e1 | * | 98.4903 | 98.8356 | 98.1475 | 89.5400 | 7894 | 93 | 7894 | 149 | 32 | 21.4765 | |
| ciseli-custom | SNP | * | * | * | 97.7648 | 98.8356 | 96.7169 | 21.5138 | 3019065 | 35569 | 3006072 | 102041 | 11838 | 11.6012 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.1748 | 98.8355 | 99.5163 | 68.9098 | 1358 | 16 | 1646 | 8 | 6 | 75.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.9799 | 98.8355 | 99.1247 | 71.3838 | 1358 | 16 | 1359 | 12 | 9 | 75.0000 | |
| jli-custom | INDEL | I1_5 | map_siren | * | 99.2153 | 98.8353 | 99.5983 | 78.8156 | 2970 | 35 | 2975 | 12 | 4 | 33.3333 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9708 | 98.8342 | 97.1223 | 75.2765 | 3052 | 36 | 3105 | 92 | 13 | 14.1304 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | het | 91.9297 | 98.8339 | 85.9271 | 86.1869 | 6865 | 81 | 6863 | 1124 | 59 | 5.2491 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.1211 | 98.8338 | 99.4100 | 80.8041 | 339 | 4 | 337 | 2 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.1228 | 98.8338 | 99.4135 | 83.7309 | 339 | 4 | 339 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.1073 | 98.8338 | 97.3913 | 53.1886 | 339 | 4 | 336 | 9 | 3 | 33.3333 | |
| ckim-dragen | INDEL | I1_5 | map_l125_m2_e1 | homalt | 98.8321 | 98.8338 | 98.8304 | 83.8298 | 339 | 4 | 338 | 4 | 3 | 75.0000 | |
| jli-custom | SNP | * | map_l150_m1_e0 | * | 99.1511 | 98.8337 | 99.4706 | 71.1384 | 30252 | 357 | 30249 | 161 | 58 | 36.0248 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e0 | * | 99.2917 | 98.8335 | 99.7541 | 64.3936 | 24741 | 292 | 24741 | 61 | 24 | 39.3443 | |
| gduggal-snapvard | SNP | tv | func_cds | het | 98.7765 | 98.8333 | 98.7199 | 41.1608 | 2626 | 31 | 2622 | 34 | 9 | 26.4706 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.0919 | 98.8333 | 99.3518 | 73.8158 | 2965 | 35 | 3372 | 22 | 17 | 77.2727 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e0 | * | 98.4835 | 98.8332 | 98.1363 | 89.4731 | 7793 | 92 | 7793 | 148 | 32 | 21.6216 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | * | 99.2907 | 98.8332 | 99.7525 | 64.4232 | 24988 | 295 | 24988 | 62 | 24 | 38.7097 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e0 | * | 98.7770 | 98.8331 | 98.7209 | 87.0110 | 847 | 10 | 849 | 11 | 2 | 18.1818 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 97.7534 | 98.8331 | 96.6970 | 90.4503 | 847 | 10 | 849 | 29 | 3 | 10.3448 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e0 | het | 98.9235 | 98.8328 | 99.0144 | 75.6918 | 19898 | 235 | 19892 | 198 | 117 | 59.0909 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.7555 | 98.8327 | 98.6784 | 75.6101 | 1524 | 18 | 1568 | 21 | 7 | 33.3333 | |
| jli-custom | INDEL | D1_5 | map_l150_m2_e0 | het | 98.3564 | 98.8327 | 97.8846 | 88.2671 | 508 | 6 | 509 | 11 | 3 | 27.2727 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e0 | het | 94.0939 | 98.8327 | 89.7887 | 93.3263 | 508 | 6 | 510 | 58 | 4 | 6.8966 | |
| ndellapenna-hhga | SNP | tv | map_l250_m1_e0 | homalt | 99.2958 | 98.8318 | 99.7642 | 85.6708 | 846 | 10 | 846 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0364 | 98.8318 | 99.2419 | 76.8770 | 6345 | 75 | 6284 | 48 | 25 | 52.0833 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0364 | 98.8318 | 99.2419 | 76.8770 | 6345 | 75 | 6284 | 48 | 25 | 52.0833 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 95.1951 | 98.8312 | 91.8171 | 91.9100 | 761 | 9 | 763 | 68 | 4 | 5.8824 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e1 | het | 91.2581 | 98.8312 | 84.7630 | 90.8034 | 761 | 9 | 751 | 135 | 18 | 13.3333 | |
| jli-custom | INDEL | D1_5 | map_l125_m2_e1 | het | 98.5762 | 98.8312 | 98.3226 | 85.8499 | 761 | 9 | 762 | 13 | 3 | 23.0769 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e1 | het | 91.0832 | 98.8312 | 84.4617 | 91.0642 | 761 | 9 | 761 | 140 | 27 | 19.2857 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0708 | 98.8304 | 99.3124 | 59.5757 | 4394 | 52 | 4333 | 30 | 22 | 73.3333 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1784 | 98.8304 | 99.5289 | 53.9837 | 845 | 10 | 845 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9764 | 98.8304 | 99.1228 | 85.1466 | 1352 | 16 | 1356 | 12 | 4 | 33.3333 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9042 | 98.8304 | 98.9781 | 84.3732 | 1352 | 16 | 1356 | 14 | 4 | 28.5714 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l250_m1_e0 | * | 97.9710 | 98.8304 | 97.1264 | 94.1037 | 169 | 2 | 169 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2366 | 98.8304 | 99.6462 | 50.2931 | 845 | 10 | 845 | 3 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6683 | 98.8300 | 92.7026 | 77.7557 | 3210 | 38 | 3214 | 253 | 21 | 8.3004 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.3479 | 98.8298 | 99.8715 | 53.0817 | 3885 | 46 | 3885 | 5 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1706 | 98.8297 | 99.5138 | 43.4464 | 2449 | 29 | 2456 | 12 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8322 | 98.8294 | 96.8550 | 70.8320 | 6163 | 73 | 6190 | 201 | 20 | 9.9503 | |
| astatham-gatk | SNP | ti | map_l100_m0_e0 | homalt | 99.3534 | 98.8294 | 99.8830 | 59.4667 | 7683 | 91 | 7683 | 9 | 8 | 88.8889 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2155 | 98.8292 | 99.6047 | 53.9964 | 17642 | 209 | 17640 | 70 | 27 | 38.5714 | |