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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28001-28050 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.9803 | 97.1761 | 94.8136 | 51.0706 | 585 | 17 | 585 | 32 | 31 | 96.8750 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3072 | 99.0383 | 99.5775 | 51.0793 | 16271 | 158 | 35588 | 151 | 137 | 90.7285 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.6339 | 99.5071 | 95.8298 | 51.0822 | 5653 | 28 | 5653 | 246 | 245 | 99.5935 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.7398 | 94.7570 | 98.8075 | 51.0833 | 1735 | 96 | 1740 | 21 | 1 | 4.7619 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 92.2399 | 86.3055 | 99.0506 | 51.0836 | 3441 | 546 | 3443 | 33 | 14 | 42.4242 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.6552 | 99.6678 | 78.2269 | 51.0842 | 600 | 2 | 600 | 167 | 166 | 99.4012 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 35.3007 | 32.2054 | 39.0543 | 51.0895 | 3569 | 7513 | 3568 | 5568 | 5531 | 99.3355 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 96.1107 | 93.3110 | 99.0836 | 51.0924 | 837 | 60 | 865 | 8 | 8 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | * | 86.4991 | 81.9764 | 91.5499 | 51.1004 | 10129 | 2227 | 10130 | 935 | 794 | 84.9198 | |
| hfeng-pmm2 | INDEL | I6_15 | * | homalt | 98.0364 | 99.6314 | 96.4918 | 51.1007 | 6216 | 23 | 6216 | 226 | 223 | 98.6726 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6661 | 99.0033 | 92.5466 | 51.1010 | 596 | 6 | 596 | 48 | 47 | 97.9167 | |
| jpowers-varprowl | INDEL | I6_15 | HG002complexvar | homalt | 84.7204 | 80.4778 | 89.4353 | 51.1131 | 977 | 237 | 982 | 116 | 103 | 88.7931 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8080 | 99.6266 | 99.9901 | 51.1176 | 10140 | 38 | 10103 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7650 | 99.8824 | 99.6479 | 51.1188 | 849 | 1 | 849 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | func_cds | * | 93.3174 | 87.8652 | 99.4911 | 51.1194 | 391 | 54 | 391 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 65.9704 | 49.6410 | 98.3092 | 51.1216 | 484 | 491 | 407 | 7 | 4 | 57.1429 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2969 | 95.1533 | 99.5393 | 51.1225 | 36065 | 1837 | 36299 | 168 | 133 | 79.1667 | |
| jpowers-varprowl | SNP | ti | tech_badpromoters | * | 96.5116 | 97.6471 | 95.4023 | 51.1236 | 83 | 2 | 83 | 4 | 1 | 25.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 70.2479 | 94.7075 | 55.8292 | 51.1236 | 340 | 19 | 340 | 269 | 269 | 100.0000 | |
| gduggal-bwavard | SNP | ti | map_siren | homalt | 98.3235 | 96.7850 | 99.9118 | 51.1238 | 36697 | 1219 | 36241 | 32 | 28 | 87.5000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.6456 | 97.0042 | 90.5118 | 51.1256 | 2299 | 71 | 2299 | 241 | 85 | 35.2697 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.6667 | 97.6378 | 71.6763 | 51.1299 | 124 | 3 | 124 | 49 | 47 | 95.9184 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.5561 | 42.5651 | 99.1245 | 51.1308 | 1603 | 2163 | 1585 | 14 | 12 | 85.7143 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.5561 | 42.5651 | 99.1245 | 51.1308 | 1603 | 2163 | 1585 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8910 | 99.9727 | 99.8094 | 51.1312 | 3665 | 1 | 3665 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.1637 | 95.4315 | 96.9072 | 51.1335 | 188 | 9 | 188 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | func_cds | * | 100.0000 | 100.0000 | 100.0000 | 51.1364 | 43 | 0 | 43 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 76.5438 | 63.9344 | 95.3488 | 51.1364 | 39 | 22 | 41 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7218 | 88.4618 | 97.4128 | 51.1450 | 15763 | 2056 | 30197 | 802 | 660 | 82.2943 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 61.6156 | 61.1636 | 62.0744 | 51.1512 | 22381 | 14211 | 22533 | 13767 | 10331 | 75.0418 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5927 | 99.1886 | 100.0000 | 51.1512 | 489 | 4 | 488 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 54.4885 | 52.9412 | 56.1290 | 51.1555 | 261 | 232 | 261 | 204 | 201 | 98.5294 | |
| qzeng-custom | INDEL | I6_15 | HG002complexvar | homalt | 93.7520 | 98.5997 | 89.3586 | 51.1570 | 1197 | 17 | 1226 | 146 | 83 | 56.8493 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9182 | 99.9727 | 99.8638 | 51.1578 | 3665 | 1 | 3665 | 5 | 5 | 100.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.8667 | 97.9695 | 90.0936 | 51.1619 | 1158 | 24 | 1155 | 127 | 117 | 92.1260 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.7848 | 41.9187 | 67.7249 | 51.1628 | 402 | 557 | 384 | 183 | 140 | 76.5027 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 90.9106 | 86.5682 | 95.7115 | 51.1635 | 5981 | 928 | 4419 | 198 | 174 | 87.8788 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7618 | 99.5445 | 99.9801 | 51.1635 | 20107 | 92 | 20081 | 4 | 3 | 75.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.4334 | 97.3461 | 99.5452 | 51.1660 | 1724 | 47 | 1751 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.1031 | 99.1903 | 99.0160 | 51.1670 | 5635 | 46 | 5635 | 56 | 56 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9505 | 99.9307 | 99.9703 | 51.1679 | 10095 | 7 | 10095 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6479 | 99.8824 | 99.4145 | 51.1721 | 849 | 1 | 849 | 5 | 5 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6391 | 99.8632 | 97.4447 | 51.1732 | 5110 | 7 | 5110 | 134 | 133 | 99.2537 | |
| jpowers-varprowl | SNP | tv | HG002compoundhet | homalt | 83.3558 | 99.8524 | 71.5372 | 51.1753 | 3383 | 5 | 3388 | 1348 | 1126 | 83.5312 | |
| ghariani-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 95.9196 | 95.4992 | 96.3438 | 51.1776 | 10121 | 477 | 10066 | 382 | 245 | 64.1361 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6293 | 99.8437 | 97.4442 | 51.1779 | 5109 | 8 | 5109 | 134 | 133 | 99.2537 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.3268 | 98.3529 | 96.3218 | 51.1785 | 836 | 14 | 838 | 32 | 19 | 59.3750 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 80.2391 | 68.1335 | 97.5758 | 51.1834 | 449 | 210 | 644 | 16 | 13 | 81.2500 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 80.2391 | 68.1335 | 97.5758 | 51.1834 | 449 | 210 | 644 | 16 | 13 | 81.2500 | |
| jli-custom | SNP | ti | map_siren | * | 99.6599 | 99.5825 | 99.7375 | 51.1882 | 99936 | 419 | 99929 | 263 | 66 | 25.0951 | |