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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
44701-44750 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 20.4082 | 11.6279 | 83.3333 | 78.5714 | 5 | 38 | 5 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l250_m0_e0 | * | 74.0741 | 66.6667 | 83.3333 | 98.0831 | 4 | 2 | 5 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l125_m1_e0 | * | 22.9885 | 13.3333 | 83.3333 | 78.5714 | 2 | 13 | 15 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l125_m1_e0 | het | 35.0877 | 22.2222 | 83.3333 | 78.0488 | 2 | 7 | 15 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l125_m2_e0 | * | 22.9885 | 13.3333 | 83.3333 | 81.4433 | 2 | 13 | 15 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l125_m2_e0 | het | 35.0877 | 22.2222 | 83.3333 | 81.0526 | 2 | 7 | 15 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l125_m2_e1 | * | 22.9885 | 13.3333 | 83.3333 | 81.6327 | 2 | 13 | 15 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l125_m2_e1 | het | 35.0877 | 22.2222 | 83.3333 | 81.2500 | 2 | 7 | 15 | 3 | 2 | 66.6667 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 78.4487 | 74.1077 | 83.3299 | 46.2271 | 1142 | 399 | 4044 | 809 | 800 | 98.8875 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 72.7782 | 64.6063 | 83.3167 | 68.8822 | 2519 | 1380 | 2512 | 503 | 427 | 84.8907 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e0 | het | 90.0912 | 98.0928 | 83.2966 | 90.0573 | 2263 | 44 | 2269 | 455 | 186 | 40.8791 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.2731 | 30.1494 | 83.2915 | 76.5745 | 666 | 1543 | 663 | 133 | 106 | 79.6992 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e1 | het | 89.8854 | 97.6190 | 83.2872 | 93.5910 | 902 | 22 | 902 | 181 | 52 | 28.7293 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 88.9582 | 95.4751 | 83.2740 | 92.7259 | 211 | 10 | 234 | 47 | 4 | 8.5106 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 70.1122 | 60.5452 | 83.2700 | 54.5769 | 422 | 275 | 438 | 88 | 86 | 97.7273 | |
| ghariani-varprowl | INDEL | * | map_l150_m1_e0 | het | 89.9408 | 97.7778 | 83.2669 | 93.2001 | 836 | 19 | 836 | 168 | 48 | 28.5714 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | het | 80.9130 | 78.6885 | 83.2669 | 93.4516 | 624 | 169 | 627 | 126 | 3 | 2.3810 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | * | 77.0714 | 71.7352 | 83.2654 | 65.6966 | 23933 | 9430 | 24301 | 4884 | 375 | 7.6781 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.0307 | 86.8852 | 83.2536 | 52.9279 | 106 | 16 | 174 | 35 | 33 | 94.2857 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 81.5683 | 79.9506 | 83.2528 | 70.9561 | 51513 | 12918 | 52192 | 10499 | 7538 | 71.7973 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 86.2310 | 89.4309 | 83.2523 | 73.2130 | 1210 | 143 | 1198 | 241 | 178 | 73.8589 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.0253 | 80.8399 | 83.2461 | 66.0293 | 616 | 146 | 636 | 128 | 70 | 54.6875 | |
| asubramanian-gatk | INDEL | * | map_l250_m1_e0 | het | 83.2020 | 83.1579 | 83.2461 | 97.3234 | 158 | 32 | 159 | 32 | 3 | 9.3750 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m1_e0 | het | 81.0099 | 78.8932 | 83.2432 | 92.8928 | 613 | 164 | 616 | 124 | 3 | 2.4194 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.4923 | 90.0065 | 83.2423 | 70.9011 | 1387 | 154 | 1371 | 276 | 273 | 98.9130 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 82.5425 | 81.8606 | 83.2358 | 38.5631 | 16860 | 3736 | 16926 | 3409 | 3210 | 94.1625 | |
| jpowers-varprowl | SNP | tv | HG002compoundhet | * | 83.9956 | 84.7697 | 83.2355 | 57.3909 | 7564 | 1359 | 7661 | 1543 | 1144 | 74.1413 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.1157 | 91.3786 | 83.2329 | 63.6787 | 2247 | 212 | 2209 | 445 | 437 | 98.2022 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e0 | * | 57.2030 | 43.5755 | 83.2323 | 66.6536 | 4948 | 6407 | 4944 | 996 | 869 | 87.2490 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.0050 | 91.1424 | 83.2268 | 80.9890 | 41653 | 4048 | 41154 | 8294 | 340 | 4.0994 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.0050 | 91.1424 | 83.2268 | 80.9890 | 41653 | 4048 | 41154 | 8294 | 340 | 4.0994 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e1 | * | 57.3730 | 43.7750 | 83.2258 | 66.7620 | 5035 | 6467 | 5031 | 1014 | 885 | 87.2781 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | * | 76.5753 | 70.9091 | 83.2258 | 83.8877 | 195 | 80 | 258 | 52 | 48 | 92.3077 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.0091 | 80.8442 | 83.2080 | 53.2969 | 996 | 236 | 996 | 201 | 178 | 88.5572 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 51.1783 | 36.9565 | 83.1933 | 65.7061 | 153 | 261 | 99 | 20 | 20 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.2241 | 93.9024 | 83.1933 | 72.9545 | 77 | 5 | 99 | 20 | 18 | 90.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 60.0475 | 46.9799 | 83.1858 | 54.4355 | 70 | 79 | 94 | 19 | 19 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002compoundhet | het | 89.9917 | 98.0140 | 83.1832 | 68.8202 | 839 | 17 | 831 | 168 | 166 | 98.8095 | |
| gduggal-snapplat | INDEL | I1_5 | map_siren | het | 80.2443 | 77.5134 | 83.1746 | 91.4579 | 1303 | 378 | 1310 | 265 | 10 | 3.7736 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 66.9912 | 56.0811 | 83.1715 | 93.2356 | 249 | 195 | 257 | 52 | 22 | 42.3077 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 81.8346 | 80.5442 | 83.1669 | 54.9775 | 592 | 143 | 583 | 118 | 117 | 99.1525 | |
| ciseli-custom | SNP | * | map_l150_m1_e0 | * | 77.9234 | 73.3052 | 83.1626 | 80.2472 | 22438 | 8171 | 22404 | 4536 | 1124 | 24.7795 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.8720 | 57.3310 | 83.1622 | 50.3568 | 2002 | 1490 | 1215 | 246 | 238 | 96.7480 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 88.8240 | 95.3174 | 83.1589 | 72.8494 | 916 | 45 | 874 | 177 | 168 | 94.9153 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | * | 86.8132 | 90.8046 | 83.1579 | 94.5371 | 79 | 8 | 79 | 16 | 4 | 25.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 81.5062 | 79.9189 | 83.1579 | 59.0870 | 394 | 99 | 395 | 80 | 78 | 97.5000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 55.1724 | 41.2831 | 83.1461 | 72.8659 | 296 | 421 | 296 | 60 | 58 | 96.6667 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m2_e1 | het | 90.3207 | 98.8506 | 83.1461 | 92.4567 | 516 | 6 | 518 | 105 | 4 | 3.8095 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e1 | het | 89.9944 | 98.0794 | 83.1408 | 90.1047 | 2298 | 45 | 2303 | 467 | 194 | 41.5418 | |
| ciseli-custom | SNP | * | map_l125_m0_e0 | * | 77.7410 | 73.0049 | 83.1343 | 80.5630 | 14152 | 5233 | 14132 | 2867 | 775 | 27.0317 | |