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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6801-6850 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3287 | 97.7902 | 98.8731 | 68.6335 | 13453 | 304 | 13424 | 153 | 111 | 72.5490 | |
| anovak-vg | SNP | * | func_cds | * | 98.5581 | 98.0331 | 99.0887 | 29.8522 | 17793 | 357 | 17724 | 163 | 111 | 68.0982 | |
| anovak-vg | SNP | ti | map_l250_m0_e0 | * | 72.4774 | 77.4453 | 68.1085 | 95.7045 | 1061 | 309 | 1055 | 494 | 111 | 22.4696 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | homalt | 99.7212 | 99.8779 | 99.5650 | 57.3567 | 26994 | 33 | 27007 | 118 | 111 | 94.0678 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6651 | 96.3610 | 96.9712 | 69.6092 | 3919 | 148 | 3906 | 122 | 111 | 90.9836 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 44.2166 | 52.6316 | 38.1215 | 75.7697 | 70 | 63 | 69 | 112 | 110 | 98.2143 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 45.2330 | 51.6779 | 40.2174 | 66.9659 | 77 | 72 | 74 | 110 | 110 | 100.0000 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | * | 96.7602 | 95.9489 | 97.5853 | 79.1496 | 12245 | 517 | 12245 | 303 | 110 | 36.3036 | |
| jmaeng-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.7531 | 97.8588 | 93.7361 | 78.9768 | 1691 | 37 | 1691 | 113 | 110 | 97.3451 | |
| gduggal-bwavard | SNP | * | HG002complexvar | homalt | 98.4291 | 96.9651 | 99.9379 | 18.6318 | 279817 | 8758 | 270523 | 168 | 110 | 65.4762 | |
| eyeh-varpipe | INDEL | D6_15 | HG002compoundhet | hetalt | 46.3719 | 30.5239 | 96.4480 | 28.8641 | 2488 | 5663 | 3014 | 111 | 110 | 99.0991 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 90.1136 | 83.0190 | 98.5341 | 67.6995 | 16769 | 3430 | 16804 | 250 | 110 | 44.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.3021 | 99.0596 | 93.6939 | 64.5457 | 10007 | 95 | 10029 | 675 | 110 | 16.2963 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.1513 | 95.3774 | 92.9563 | 76.6652 | 11018 | 534 | 11046 | 837 | 110 | 13.1422 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.1513 | 95.3774 | 92.9563 | 76.6652 | 11018 | 534 | 11046 | 837 | 110 | 13.1422 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.7737 | 95.3383 | 96.2131 | 64.2456 | 1268 | 62 | 2998 | 118 | 110 | 93.2203 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.9285 | 91.4672 | 96.5260 | 44.7581 | 879 | 82 | 3362 | 121 | 110 | 90.9091 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e1 | het | 63.3474 | 64.9842 | 61.7910 | 92.1527 | 206 | 111 | 207 | 128 | 110 | 85.9375 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6271 | 99.6871 | 99.5672 | 75.3638 | 33132 | 104 | 33126 | 144 | 110 | 76.3889 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5688 | 99.2675 | 97.8799 | 72.6755 | 5556 | 41 | 5540 | 120 | 110 | 91.6667 | |
| ltrigg-rtg2 | SNP | tv | * | * | 99.8284 | 99.8825 | 99.7743 | 19.4672 | 968557 | 1139 | 968810 | 2192 | 110 | 5.0183 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 91.7166 | 90.1734 | 93.3134 | 34.6469 | 1560 | 170 | 1563 | 112 | 110 | 98.2143 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 82.8241 | 83.7838 | 81.8862 | 84.4940 | 558 | 108 | 547 | 121 | 110 | 90.9091 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 82.8241 | 83.7838 | 81.8862 | 84.4940 | 558 | 108 | 547 | 121 | 110 | 90.9091 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 89.1469 | 90.2954 | 88.0272 | 87.4552 | 1284 | 138 | 1294 | 176 | 110 | 62.5000 | |
| qzeng-custom | SNP | tv | map_l250_m1_e0 | het | 77.8994 | 68.7185 | 89.9116 | 96.1828 | 1228 | 559 | 1221 | 137 | 110 | 80.2920 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 26.5368 | 18.6688 | 45.8678 | 43.7209 | 115 | 501 | 111 | 131 | 110 | 83.9695 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 15.0284 | 9.6078 | 34.4828 | 60.5442 | 147 | 1383 | 140 | 266 | 110 | 41.3534 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 15.0284 | 9.6078 | 34.4828 | 60.5442 | 147 | 1383 | 140 | 266 | 110 | 41.3534 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.7098 | 95.5696 | 97.8776 | 67.1394 | 5587 | 259 | 5534 | 120 | 110 | 91.6667 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.7098 | 95.5696 | 97.8776 | 67.1394 | 5587 | 259 | 5534 | 120 | 110 | 91.6667 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6832 | 96.0089 | 99.4168 | 42.4933 | 19774 | 822 | 19775 | 116 | 110 | 94.8276 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | het | 82.2726 | 79.2056 | 85.5867 | 66.5243 | 678 | 178 | 671 | 113 | 110 | 97.3451 | |
| hfeng-pmm3 | INDEL | D1_5 | * | * | 99.5137 | 99.1441 | 99.8861 | 56.7122 | 145489 | 1256 | 145542 | 166 | 109 | 65.6627 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.2247 | 94.5429 | 97.9675 | 63.7557 | 5977 | 345 | 5977 | 124 | 109 | 87.9032 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.2247 | 94.5429 | 97.9675 | 63.7557 | 5977 | 345 | 5977 | 124 | 109 | 87.9032 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.3028 | 95.2767 | 97.3513 | 64.8567 | 4236 | 210 | 4190 | 114 | 109 | 95.6140 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7221 | 99.9452 | 99.4999 | 76.1475 | 21887 | 12 | 21887 | 110 | 109 | 99.0909 | |
| eyeh-varpipe | INDEL | C1_5 | * | * | 91.3266 | 90.0000 | 92.6929 | 92.2121 | 9 | 1 | 2499 | 197 | 109 | 55.3299 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 74.9014 | 73.1006 | 76.7932 | 54.3353 | 356 | 131 | 364 | 110 | 109 | 99.0909 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 76.8075 | 94.3048 | 64.7869 | 87.6558 | 6491 | 392 | 6399 | 3478 | 109 | 3.1340 | |
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6995 | 99.7594 | 99.6396 | 71.1645 | 30687 | 74 | 30687 | 111 | 109 | 98.1982 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002compoundhet | * | 94.6939 | 94.1478 | 95.2463 | 35.4713 | 2204 | 137 | 2204 | 110 | 109 | 99.0909 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0601 | 97.7965 | 94.3842 | 73.9824 | 4749 | 107 | 4790 | 285 | 109 | 38.2456 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9756 | 96.4774 | 99.5211 | 49.0897 | 35303 | 1289 | 35537 | 171 | 109 | 63.7427 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.8579 | 98.3570 | 99.3639 | 41.8770 | 17959 | 300 | 17963 | 115 | 109 | 94.7826 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 90.8247 | 87.1204 | 94.8579 | 42.0846 | 2381 | 352 | 2103 | 114 | 109 | 95.6140 | |
| eyeh-varpipe | SNP | ti | HG002complexvar | het | 99.8630 | 99.8948 | 99.8311 | 17.2379 | 314435 | 331 | 297366 | 503 | 109 | 21.6700 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 89.5071 | 83.4165 | 96.5571 | 49.6329 | 11705 | 2327 | 3113 | 111 | 109 | 98.1982 | |
| gduggal-bwaplat | SNP | ti | HG002complexvar | homalt | 98.4485 | 97.0077 | 99.9328 | 19.1570 | 187674 | 5789 | 187425 | 126 | 109 | 86.5079 | |