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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26451-26500 / 86044 show all | |||||||||||||||
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3156 | 99.8517 | 96.8261 | 47.4887 | 6735 | 10 | 6742 | 221 | 131 | 59.2760 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.2149 | 89.1589 | 95.4879 | 47.4893 | 33793 | 4109 | 39553 | 1869 | 1772 | 94.8101 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 94.6459 | 92.4171 | 96.9849 | 47.4934 | 195 | 16 | 193 | 6 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 32.5233 | 24.3750 | 48.8550 | 47.4950 | 39 | 121 | 128 | 134 | 134 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.4444 | 85.9504 | 100.0000 | 47.4960 | 312 | 51 | 325 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 92.1538 | 87.8543 | 96.8958 | 47.4971 | 217 | 30 | 437 | 14 | 14 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | func_cds | * | 98.8235 | 97.6744 | 100.0000 | 47.5000 | 42 | 1 | 42 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 30.6087 | 21.6216 | 52.3810 | 47.5000 | 8 | 29 | 11 | 10 | 3 | 30.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.5922 | 88.6792 | 96.8663 | 47.5010 | 2444 | 312 | 2442 | 79 | 77 | 97.4684 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8839 | 99.9535 | 99.8144 | 47.5030 | 2151 | 1 | 2151 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8839 | 99.9535 | 99.8144 | 47.5030 | 2151 | 1 | 2151 | 4 | 4 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 54.0093 | 51.1111 | 57.2559 | 47.5069 | 69 | 66 | 217 | 162 | 144 | 88.8889 | |
| ltrigg-rtg1 | INDEL | D6_15 | * | * | 98.2810 | 97.0642 | 99.5288 | 47.5098 | 25326 | 766 | 25133 | 119 | 76 | 63.8655 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 33.7796 | 27.0106 | 45.0758 | 47.5149 | 356 | 962 | 357 | 435 | 415 | 95.4023 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | het | 91.1805 | 84.2105 | 99.4083 | 47.5155 | 560 | 105 | 504 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 90.7027 | 85.0765 | 97.1257 | 47.5173 | 667 | 117 | 811 | 24 | 20 | 83.3333 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.2242 | 97.7347 | 98.7186 | 47.5188 | 11606 | 269 | 11787 | 153 | 107 | 69.9346 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 30.5317 | 23.4920 | 43.5957 | 47.5189 | 923 | 3006 | 936 | 1211 | 1021 | 84.3105 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4016 | 97.3287 | 99.4985 | 47.5257 | 10129 | 278 | 10118 | 51 | 47 | 92.1569 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.5379 | 98.1817 | 98.8967 | 47.5296 | 17927 | 332 | 17928 | 200 | 196 | 98.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.3838 | 98.8184 | 99.9558 | 47.5296 | 2258 | 27 | 2261 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | hetalt | 96.5594 | 93.9271 | 99.3435 | 47.5316 | 232 | 15 | 454 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7602 | 99.5215 | 100.0000 | 47.5348 | 416 | 2 | 415 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7289 | 88.8607 | 96.9493 | 47.5369 | 2449 | 307 | 2447 | 77 | 75 | 97.4026 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 93.0003 | 88.7701 | 97.6540 | 47.5385 | 332 | 42 | 333 | 8 | 2 | 25.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 87.8953 | 92.2197 | 83.9583 | 47.5410 | 403 | 34 | 403 | 77 | 45 | 58.4416 | |
| jmaeng-gatk | SNP | tv | tech_badpromoters | het | 98.4615 | 96.9697 | 100.0000 | 47.5410 | 32 | 1 | 32 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 53.4400 | 37.6975 | 91.7582 | 47.5504 | 167 | 276 | 167 | 15 | 13 | 86.6667 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 86.9339 | 77.1098 | 99.6266 | 47.5519 | 1334 | 396 | 1334 | 5 | 2 | 40.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 77.2317 | 63.6364 | 98.2143 | 47.5546 | 210 | 120 | 495 | 9 | 6 | 66.6667 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9071 | 100.0000 | 99.8145 | 47.5553 | 2152 | 0 | 2152 | 4 | 4 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | func_cds | het | 98.2456 | 98.8235 | 97.6744 | 47.5610 | 84 | 1 | 84 | 2 | 1 | 50.0000 | |
| ckim-gatk | SNP | ti | tech_badpromoters | het | 98.8506 | 97.7273 | 100.0000 | 47.5610 | 43 | 1 | 43 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | tech_badpromoters | het | 98.8506 | 97.7273 | 100.0000 | 47.5610 | 43 | 1 | 43 | 0 | 0 | ||
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 65.1903 | 73.6735 | 58.4590 | 47.5626 | 361 | 129 | 1396 | 992 | 627 | 63.2056 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 50.3229 | 33.8852 | 97.7333 | 47.5634 | 1617 | 3155 | 2587 | 60 | 56 | 93.3333 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8562 | 99.7624 | 99.9502 | 47.5635 | 20151 | 48 | 20069 | 10 | 7 | 70.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 86.7395 | 76.5840 | 100.0000 | 47.5746 | 278 | 85 | 281 | 0 | 0 | ||
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.5569 | 94.9365 | 90.2936 | 47.5778 | 11887 | 634 | 11256 | 1210 | 1034 | 85.4545 | |
| jlack-gatk | SNP | * | HG002compoundhet | het | 99.3003 | 99.6050 | 98.9974 | 47.5779 | 14122 | 56 | 14120 | 143 | 30 | 20.9790 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.8509 | 99.8255 | 99.8764 | 47.5826 | 4004 | 7 | 4039 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8608 | 100.0000 | 99.7220 | 47.5832 | 2152 | 0 | 2152 | 6 | 6 | 100.0000 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.1636 | 99.0725 | 95.3268 | 47.5871 | 3418 | 32 | 3427 | 168 | 33 | 19.6429 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6411 | 96.9703 | 98.3214 | 47.5930 | 19972 | 624 | 19973 | 341 | 336 | 98.5337 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 54.3121 | 49.8996 | 59.5807 | 47.5940 | 21624 | 21711 | 28700 | 19470 | 15099 | 77.5501 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.1109 | 98.8558 | 86.2275 | 47.5941 | 432 | 5 | 432 | 69 | 69 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | * | * | 57.4140 | 50.4492 | 66.6100 | 47.5997 | 12523 | 12300 | 12542 | 6287 | 6247 | 99.3638 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.5075 | 66.4183 | 70.7325 | 47.6018 | 13192 | 6670 | 15431 | 6385 | 4862 | 76.1472 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 74.2102 | 70.4505 | 78.3938 | 47.6036 | 8366 | 3509 | 8356 | 2303 | 2257 | 98.0026 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.2840 | 98.5782 | 100.0000 | 47.6071 | 208 | 3 | 208 | 0 | 0 | ||