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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16551-16600 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.6568 | 87.8116 | 89.5184 | 60.6466 | 317 | 44 | 316 | 37 | 30 | 81.0811 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 63.1287 | 83.7209 | 50.6667 | 72.8261 | 36 | 7 | 38 | 37 | 25 | 67.5676 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 79.2924 | 78.0000 | 80.6283 | 58.3878 | 156 | 44 | 154 | 37 | 34 | 91.8919 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5789 | 95.9353 | 99.2797 | 63.8316 | 5098 | 216 | 5100 | 37 | 30 | 81.0811 | |
| ckim-gatk | SNP | * | HG002complexvar | homalt | 99.2945 | 98.6114 | 99.9870 | 20.0389 | 284567 | 4007 | 284543 | 37 | 31 | 83.7838 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 31.2655 | 77.7778 | 19.5652 | 86.4307 | 7 | 2 | 9 | 37 | 2 | 5.4054 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5579 | 99.4508 | 99.6651 | 63.3945 | 11047 | 61 | 11012 | 37 | 16 | 43.2432 | |
| ckim-dragen | INDEL | * | map_l125_m0_e0 | het | 94.7671 | 95.7411 | 93.8127 | 91.0559 | 562 | 25 | 561 | 37 | 3 | 8.1081 | |
| ckim-isaac | SNP | ti | map_l125_m1_e0 | * | 74.8103 | 59.8330 | 99.7896 | 70.2803 | 17552 | 11783 | 17552 | 37 | 7 | 18.9189 | |
| ckim-isaac | SNP | tv | map_l100_m2_e0 | * | 75.7866 | 61.1033 | 99.7587 | 67.3111 | 15296 | 9737 | 15299 | 37 | 12 | 32.4324 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9637 | 97.9911 | 97.9364 | 69.6975 | 1756 | 36 | 1756 | 37 | 31 | 83.7838 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6665 | 93.9188 | 99.5798 | 30.8815 | 8726 | 565 | 8768 | 37 | 37 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6665 | 93.9188 | 99.5798 | 30.8815 | 8726 | 565 | 8768 | 37 | 37 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | hetalt | 93.7593 | 91.3129 | 96.3403 | 47.3985 | 925 | 88 | 974 | 37 | 37 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 85.8513 | 89.0547 | 82.8704 | 80.0000 | 179 | 22 | 179 | 37 | 34 | 91.8919 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 63.3593 | 46.6406 | 98.7609 | 37.5052 | 3346 | 3828 | 2949 | 37 | 33 | 89.1892 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9212 | 94.7708 | 99.1715 | 26.5340 | 4404 | 243 | 4429 | 37 | 35 | 94.5946 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 87.7109 | 81.5789 | 94.8396 | 65.2279 | 682 | 154 | 680 | 37 | 31 | 83.7838 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 94.5419 | 90.7051 | 98.7175 | 44.4016 | 2830 | 290 | 2848 | 37 | 34 | 91.8919 | |
| egarrison-hhga | SNP | * | map_l150_m0_e0 | * | 99.0549 | 98.4292 | 99.6886 | 78.8145 | 11843 | 189 | 11843 | 37 | 16 | 43.2432 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5195 | 99.4061 | 99.6332 | 48.7604 | 10042 | 60 | 10049 | 37 | 25 | 67.5676 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.2051 | 91.0693 | 95.4433 | 86.0265 | 775 | 76 | 775 | 37 | 12 | 32.4324 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 39.3443 | 96.5321 | 0 | 0 | 24 | 37 | 22 | 59.4595 | |
| dgrover-gatk | SNP | * | HG002complexvar | homalt | 99.9653 | 99.9435 | 99.9872 | 19.8551 | 288411 | 163 | 288386 | 37 | 35 | 94.5946 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 87.8990 | 80.2937 | 97.0958 | 47.6367 | 1039 | 255 | 1237 | 37 | 31 | 83.7838 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | homalt | 74.1154 | 66.3230 | 83.9827 | 64.7328 | 193 | 98 | 194 | 37 | 34 | 91.8919 | |
| ckim-isaac | INDEL | D1_5 | map_siren | het | 90.2008 | 83.4870 | 98.0888 | 79.1671 | 1901 | 376 | 1899 | 37 | 14 | 37.8378 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 95.0368 | 92.4855 | 97.7328 | 30.1370 | 1600 | 130 | 1595 | 37 | 31 | 83.7838 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | * | 98.3167 | 98.3151 | 98.3182 | 89.0905 | 2159 | 37 | 2163 | 37 | 8 | 21.6216 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | * | 98.3157 | 98.2921 | 98.3393 | 89.1708 | 2187 | 38 | 2191 | 37 | 8 | 21.6216 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e1 | * | 97.6961 | 97.3182 | 98.0769 | 82.8076 | 1887 | 52 | 1887 | 37 | 17 | 45.9459 | |
| ndellapenna-hhga | INDEL | D1_5 | map_siren | het | 98.4865 | 98.5946 | 98.3786 | 78.7325 | 2245 | 32 | 2245 | 37 | 15 | 40.5405 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.0567 | 88.9908 | 91.1483 | 82.8689 | 388 | 48 | 381 | 37 | 24 | 64.8649 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.1814 | 73.6559 | 85.6031 | 65.5957 | 137 | 49 | 220 | 37 | 23 | 62.1622 | |
| qzeng-custom | INDEL | I6_15 | map_siren | homalt | 77.8370 | 87.7778 | 69.9187 | 73.1441 | 79 | 11 | 86 | 37 | 1 | 2.7027 | |
| qzeng-custom | SNP | ti | map_l100_m0_e0 | homalt | 81.6311 | 69.2951 | 99.3106 | 61.6670 | 5387 | 2387 | 5330 | 37 | 36 | 97.2973 | |
| qzeng-custom | SNP | ti | map_l150_m2_e0 | homalt | 79.9782 | 66.9643 | 99.2706 | 72.9194 | 5100 | 2516 | 5036 | 37 | 37 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_l100_m1_e0 | * | 53.3873 | 61.5385 | 47.1429 | 81.9588 | 16 | 10 | 33 | 37 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.9385 | 82.2761 | 92.1610 | 61.6572 | 441 | 95 | 435 | 37 | 30 | 81.0811 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.2677 | 99.3946 | 99.1411 | 57.1258 | 4269 | 26 | 4271 | 37 | 6 | 16.2162 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e1 | * | 98.1855 | 96.8824 | 99.5241 | 87.6224 | 7738 | 249 | 7738 | 37 | 19 | 51.3514 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e1 | het | 98.7157 | 97.7411 | 99.7100 | 75.1509 | 12721 | 294 | 12721 | 37 | 17 | 45.9459 | |
| ndellapenna-hhga | SNP | tv | map_l125_m1_e0 | het | 98.8001 | 97.9854 | 99.6285 | 68.0340 | 9922 | 204 | 9922 | 37 | 16 | 43.2432 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e0 | * | 98.9623 | 98.2651 | 99.6695 | 73.4684 | 11158 | 197 | 11158 | 37 | 17 | 45.9459 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e1 | * | 98.9668 | 98.2699 | 99.6737 | 73.4886 | 11303 | 199 | 11303 | 37 | 17 | 45.9459 | |
| qzeng-custom | INDEL | C16_PLUS | HG002complexvar | het | 0.0000 | 0.0000 | 9.7561 | 77.0950 | 0 | 0 | 4 | 37 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | func_cds | * | 99.5213 | 99.8856 | 99.1597 | 26.7631 | 4366 | 5 | 4366 | 37 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | func_cds | het | 99.2144 | 99.8118 | 98.6240 | 27.1866 | 2652 | 5 | 2652 | 37 | 0 | 0.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.9023 | 98.7622 | 99.0427 | 58.2117 | 3830 | 48 | 3828 | 37 | 32 | 86.4865 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | het | 44.1840 | 28.4887 | 98.3906 | 67.8462 | 2262 | 5678 | 2262 | 37 | 3 | 8.1081 | |