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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19751-19800 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 51.7766 | 41.1290 | 69.8630 | 99.9464 | 51 | 73 | 51 | 22 | 18 | 81.8182 | |
| raldana-dualsentieon | SNP | ti | func_cds | * | 99.8985 | 99.9565 | 99.8406 | 21.8782 | 13781 | 6 | 13779 | 22 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | ti | func_cds | het | 99.8414 | 99.9412 | 99.7418 | 23.3144 | 8499 | 5 | 8497 | 22 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4263 | 99.4533 | 99.3994 | 51.5732 | 3638 | 20 | 3641 | 22 | 17 | 77.2727 | |
| rpoplin-dv42 | INDEL | * | map_l100_m0_e0 | het | 97.0417 | 96.2782 | 97.8175 | 85.4440 | 983 | 38 | 986 | 22 | 6 | 27.2727 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | het | 97.5874 | 96.8539 | 98.3321 | 86.1464 | 1293 | 42 | 1297 | 22 | 7 | 31.8182 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e0 | het | 97.6481 | 96.9087 | 98.3988 | 86.9392 | 1348 | 43 | 1352 | 22 | 7 | 31.8182 | |
| rpoplin-dv42 | INDEL | * | map_l150_m1_e0 | * | 97.8620 | 97.3842 | 98.3446 | 98.9844 | 1303 | 35 | 1307 | 22 | 10 | 45.4545 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e0 | * | 97.9323 | 97.4432 | 98.4263 | 99.0377 | 1372 | 36 | 1376 | 22 | 10 | 45.4545 | |
| rpoplin-dv42 | INDEL | * | segdup | * | 98.8630 | 98.5915 | 99.1359 | 99.1675 | 2520 | 36 | 2524 | 22 | 21 | 95.4545 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002complexvar | het | 99.3867 | 98.9004 | 99.8777 | 56.7573 | 17989 | 200 | 17970 | 22 | 13 | 59.0909 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.4724 | 100.0000 | 89.5238 | 67.0846 | 188 | 0 | 188 | 22 | 21 | 95.4545 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 87.8389 | 85.4251 | 90.3930 | 78.7175 | 211 | 36 | 207 | 22 | 19 | 86.3636 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1713 | 99.1535 | 99.1891 | 87.0415 | 2694 | 23 | 2691 | 22 | 15 | 68.1818 | |
| rpoplin-dv42 | SNP | * | map_l125_m0_e0 | homalt | 99.0933 | 98.5101 | 99.6834 | 69.3810 | 6612 | 100 | 6612 | 21 | 20 | 95.2381 | |
| rpoplin-dv42 | SNP | ti | HG002compoundhet | homalt | 99.7770 | 99.8377 | 99.7163 | 30.8389 | 7382 | 12 | 7382 | 21 | 20 | 95.2381 | |
| rpoplin-dv42 | SNP | ti | map_l250_m0_e0 | het | 97.5322 | 97.3233 | 97.7419 | 92.5223 | 909 | 25 | 909 | 21 | 11 | 52.3810 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3392 | 99.0283 | 99.6520 | 55.6062 | 6013 | 59 | 6013 | 21 | 19 | 90.4762 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 88.2174 | 92.0732 | 84.6715 | 84.6413 | 151 | 13 | 116 | 21 | 19 | 90.4762 | |
| hfeng-pmm3 | INDEL | * | map_l125_m1_e0 | het | 98.2769 | 98.1273 | 98.4270 | 85.5800 | 1310 | 25 | 1314 | 21 | 3 | 14.2857 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e0 | het | 98.2731 | 98.0590 | 98.4881 | 86.4620 | 1364 | 27 | 1368 | 21 | 3 | 14.2857 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e1 | het | 98.2939 | 98.0824 | 98.5064 | 86.5724 | 1381 | 27 | 1385 | 21 | 3 | 14.2857 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.2757 | 97.3404 | 97.2112 | 60.3476 | 732 | 20 | 732 | 21 | 21 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4735 | 88.5110 | 99.0255 | 55.9755 | 2134 | 277 | 2134 | 21 | 19 | 90.4762 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.0876 | 98.7138 | 93.5976 | 68.7321 | 307 | 4 | 307 | 21 | 20 | 95.2381 | |
| hfeng-pmm1 | SNP | ti | HG002complexvar | homalt | 99.9845 | 99.9798 | 99.9891 | 18.4732 | 193424 | 39 | 193416 | 21 | 21 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | segdup | het | 99.6406 | 99.6785 | 99.6028 | 90.6534 | 5270 | 17 | 5266 | 21 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.6470 | 89.9396 | 95.5224 | 75.4579 | 447 | 50 | 448 | 21 | 12 | 57.1429 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002complexvar | * | 96.9275 | 95.2526 | 98.6624 | 64.9632 | 1565 | 78 | 1549 | 21 | 10 | 47.6190 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4904 | 92.7660 | 98.3796 | 71.9905 | 1308 | 102 | 1275 | 21 | 12 | 57.1429 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 80.5324 | 69.4405 | 95.8416 | 48.3640 | 484 | 213 | 484 | 21 | 19 | 90.4762 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.8593 | 86.7265 | 97.6378 | 63.9497 | 869 | 133 | 868 | 21 | 15 | 71.4286 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.4738 | 95.6357 | 95.3125 | 79.8742 | 504 | 23 | 427 | 21 | 20 | 95.2381 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | het | 98.9180 | 97.9581 | 99.8969 | 54.5187 | 20341 | 424 | 20346 | 21 | 14 | 66.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4745 | 99.8312 | 99.1202 | 49.1587 | 2366 | 4 | 2366 | 21 | 20 | 95.2381 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.2579 | 87.4251 | 97.6562 | 63.9582 | 876 | 126 | 875 | 21 | 17 | 80.9524 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6903 | 99.1511 | 98.2338 | 72.3424 | 1168 | 10 | 1168 | 21 | 21 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.2500 | 99.0354 | 93.6170 | 69.7610 | 308 | 3 | 308 | 21 | 20 | 95.2381 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.2955 | 91.2500 | 95.4348 | 82.0942 | 438 | 42 | 439 | 21 | 10 | 47.6190 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | homalt | 98.9979 | 98.1928 | 99.8163 | 60.9544 | 11410 | 210 | 11410 | 21 | 16 | 76.1905 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0461 | 99.2354 | 98.8575 | 51.9477 | 1817 | 14 | 1817 | 21 | 0 | 0.0000 | |
| jli-custom | INDEL | * | map_l150_m2_e1 | * | 98.2943 | 98.0542 | 98.5356 | 89.3280 | 1411 | 28 | 1413 | 21 | 8 | 38.0952 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2343 | 99.5392 | 98.9313 | 39.6684 | 1944 | 9 | 1944 | 21 | 20 | 95.2381 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3306 | 97.5600 | 99.1136 | 75.7051 | 2399 | 60 | 2348 | 21 | 7 | 33.3333 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5896 | 95.5833 | 99.6819 | 79.9854 | 6579 | 304 | 6580 | 21 | 4 | 19.0476 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4756 | 99.0317 | 99.9234 | 63.0172 | 27410 | 268 | 27401 | 21 | 8 | 38.0952 | |
| eyeh-varpipe | INDEL | D1_5 | segdup | homalt | 97.2973 | 100.0000 | 94.7368 | 94.2878 | 359 | 0 | 378 | 21 | 20 | 95.2381 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 69.3912 | 74.4186 | 65.0000 | 63.6364 | 32 | 11 | 39 | 21 | 20 | 95.2381 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 70.3015 | 64.9123 | 76.6667 | 98.8432 | 37 | 20 | 69 | 21 | 16 | 76.1905 | |
| eyeh-varpipe | INDEL | I16_PLUS | * | hetalt | 18.8152 | 10.4862 | 91.4634 | 56.9177 | 220 | 1878 | 225 | 21 | 21 | 100.0000 | |