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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66651-66700 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | * | 84.1952 | 73.5770 | 98.3950 | 83.2672 | 1409 | 506 | 1410 | 23 | 11 | 47.8261 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e1 | * | 84.2482 | 73.6462 | 98.4160 | 83.3218 | 1428 | 511 | 1429 | 23 | 11 | 47.8261 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 76.6782 | 73.7705 | 79.8246 | 69.7613 | 90 | 32 | 91 | 23 | 19 | 82.6087 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.8674 | 53.7223 | 92.1233 | 62.9442 | 267 | 230 | 269 | 23 | 17 | 73.9130 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 56.9192 | 62.7451 | 52.0833 | 91.3514 | 32 | 19 | 25 | 23 | 2 | 8.6957 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.1245 | 94.5714 | 97.7295 | 52.4859 | 993 | 57 | 990 | 23 | 9 | 39.1304 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.5092 | 96.8061 | 98.2226 | 52.3389 | 1273 | 42 | 1271 | 23 | 16 | 69.5652 | |
| ckim-vqsr | INDEL | I16_PLUS | * | het | 98.1949 | 97.2774 | 99.1298 | 76.5400 | 2644 | 74 | 2620 | 23 | 10 | 43.4783 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7263 | 88.4232 | 97.4697 | 64.7401 | 886 | 116 | 886 | 23 | 20 | 86.9565 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5308 | 95.5496 | 99.5959 | 50.2969 | 5668 | 264 | 5668 | 23 | 21 | 91.3043 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1361 | 98.7615 | 99.5135 | 67.2304 | 4705 | 59 | 4705 | 23 | 10 | 43.4783 | |
| ckim-vqsr | SNP | * | map_l250_m0_e0 | * | 54.9244 | 38.2670 | 97.2619 | 98.4570 | 817 | 1318 | 817 | 23 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | map_l250_m0_e0 | het | 61.5036 | 45.0863 | 96.7236 | 98.5089 | 679 | 827 | 679 | 23 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5262 | 99.3991 | 99.6536 | 77.7226 | 6617 | 40 | 6617 | 23 | 9 | 39.1304 | |
| ckim-vqsr | SNP | tv | HG002compoundhet | * | 98.8066 | 97.8931 | 99.7373 | 49.7301 | 8735 | 188 | 8732 | 23 | 15 | 65.2174 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9829 | 96.4509 | 99.5644 | 27.1624 | 5245 | 193 | 5257 | 23 | 22 | 95.6522 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.6206 | 94.3419 | 99.0120 | 44.7425 | 2301 | 138 | 2305 | 23 | 10 | 43.4783 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m1_e0 | het | 84.3881 | 76.1411 | 94.6387 | 94.4659 | 367 | 115 | 406 | 23 | 19 | 82.6087 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | het | 84.9655 | 76.8482 | 95.0000 | 94.5186 | 395 | 119 | 437 | 23 | 19 | 82.6087 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e1 | het | 85.0994 | 77.0115 | 95.0855 | 94.5122 | 402 | 120 | 445 | 23 | 19 | 82.6087 | |
| qzeng-custom | INDEL | D6_15 | segdup | het | 90.2081 | 95.6522 | 85.3503 | 94.2743 | 88 | 4 | 134 | 23 | 6 | 26.0870 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e0 | * | 79.5482 | 67.3279 | 97.1883 | 91.0248 | 577 | 280 | 795 | 23 | 11 | 47.8261 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e1 | * | 79.7441 | 67.5862 | 97.2356 | 91.0364 | 588 | 282 | 809 | 23 | 11 | 47.8261 | |
| qzeng-custom | INDEL | I6_15 | * | hetalt | 81.2294 | 68.6820 | 99.3860 | 39.2080 | 5873 | 2678 | 3723 | 23 | 17 | 73.9130 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 88.2413 | 79.4231 | 99.2621 | 38.3627 | 2478 | 642 | 3094 | 23 | 17 | 73.9130 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2828 | 99.0685 | 99.4980 | 45.3418 | 4573 | 43 | 4559 | 23 | 2 | 8.6957 | |
| qzeng-custom | SNP | tv | map_l125_m0_e0 | homalt | 80.6373 | 68.2575 | 98.5026 | 73.5992 | 1516 | 705 | 1513 | 23 | 23 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | map_l125_m0_e0 | * | 96.9865 | 96.5986 | 97.3774 | 87.3376 | 852 | 30 | 854 | 23 | 3 | 13.0435 | |
| raldana-dualsentieon | INDEL | * | map_l150_m1_e0 | het | 96.8336 | 96.3743 | 97.2973 | 87.9068 | 824 | 31 | 828 | 23 | 2 | 8.6957 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e0 | het | 96.9552 | 96.4680 | 97.4473 | 88.6581 | 874 | 32 | 878 | 23 | 2 | 8.6957 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e1 | het | 96.9025 | 96.3203 | 97.4918 | 88.7346 | 890 | 34 | 894 | 23 | 2 | 8.6957 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3535 | 95.3835 | 99.4066 | 24.9710 | 3843 | 186 | 3853 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | hetalt | 95.3564 | 92.8046 | 98.0525 | 53.9032 | 1135 | 88 | 1158 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 94.0840 | 93.1034 | 95.0855 | 69.5114 | 432 | 32 | 445 | 23 | 15 | 65.2174 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e0 | homalt | 99.7835 | 99.6512 | 99.9162 | 62.4810 | 27427 | 96 | 27427 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.7857 | 99.6546 | 99.9170 | 62.4746 | 27700 | 96 | 27700 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4268 | 99.6283 | 99.2261 | 57.2682 | 2948 | 11 | 2949 | 23 | 1 | 4.3478 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1298 | 99.5085 | 98.7541 | 58.9047 | 1822 | 9 | 1823 | 23 | 1 | 4.3478 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.8623 | 89.4444 | 96.5517 | 85.0649 | 644 | 76 | 644 | 23 | 10 | 43.4783 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.4955 | 96.8668 | 94.1624 | 79.5749 | 371 | 12 | 371 | 23 | 18 | 78.2609 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | het | 97.5455 | 95.6773 | 99.4882 | 51.9512 | 4471 | 202 | 4471 | 23 | 15 | 65.2174 | |
| qzeng-custom | INDEL | * | func_cds | het | 93.8897 | 98.1308 | 90.0000 | 52.8689 | 210 | 4 | 207 | 23 | 2 | 8.6957 | |
| qzeng-custom | INDEL | C16_PLUS | HG002compoundhet | homalt | 0.0000 | 0.0000 | 57.4074 | 0 | 0 | 0 | 23 | 0 | 0.0000 | ||
| qzeng-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 14.8148 | 93.4307 | 0 | 0 | 4 | 23 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_siren | * | 98.6051 | 98.0033 | 99.2142 | 76.9745 | 2945 | 60 | 2904 | 23 | 1 | 4.3478 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1027 | 96.8437 | 99.3947 | 53.9673 | 3774 | 123 | 3777 | 23 | 15 | 65.2174 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 72.0128 | 70.5263 | 73.5632 | 88.3378 | 67 | 28 | 64 | 23 | 19 | 82.6087 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 84.8330 | 85.0000 | 84.6667 | 87.5519 | 136 | 24 | 127 | 23 | 23 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5982 | 96.9186 | 98.2874 | 71.4134 | 1321 | 42 | 1320 | 23 | 20 | 86.9565 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m0_e0 | * | 57.0815 | 42.9032 | 85.2564 | 80.1020 | 133 | 177 | 133 | 23 | 21 | 91.3043 | |