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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80451-80500 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 91.0480 | 87.7443 | 94.6101 | 39.6686 | 12973 | 1812 | 12884 | 734 | 647 | 88.1471 | |
| mlin-fermikit | INDEL | I1_5 | HG002complexvar | homalt | 96.8973 | 96.5125 | 97.2853 | 48.2881 | 12979 | 469 | 12901 | 360 | 351 | 97.5000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.9671 | 94.1821 | 95.7654 | 49.5027 | 12983 | 802 | 12981 | 574 | 528 | 91.9861 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.5531 | 82.3858 | 91.1644 | 45.8288 | 12984 | 2776 | 21554 | 2089 | 859 | 41.1202 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9211 | 94.3694 | 99.6146 | 31.5700 | 12989 | 775 | 13182 | 51 | 50 | 98.0392 | |
| gduggal-bwaplat | SNP | ti | map_l125_m2_e1 | het | 80.7395 | 68.0935 | 99.1541 | 88.7617 | 12997 | 6090 | 13011 | 111 | 31 | 27.9279 | |
| eyeh-varpipe | INDEL | * | HG002compoundhet | * | 44.6205 | 43.3845 | 45.9289 | 60.1662 | 12998 | 16962 | 12816 | 15088 | 14950 | 99.0854 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.5812 | 92.6383 | 98.7173 | 34.2439 | 12999 | 1033 | 13853 | 180 | 164 | 91.1111 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | homalt | 96.6684 | 96.6984 | 96.6384 | 45.8931 | 13004 | 444 | 12649 | 440 | 434 | 98.6364 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.2372 | 87.9811 | 86.5058 | 47.3544 | 13008 | 1777 | 14193 | 2214 | 1144 | 51.6712 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0845 | 92.7950 | 99.6157 | 30.7178 | 13021 | 1011 | 13220 | 51 | 51 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0921 | 92.8093 | 99.6158 | 30.7146 | 13023 | 1009 | 13222 | 51 | 51 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0483 | 92.8307 | 99.4969 | 46.1918 | 13026 | 1006 | 13250 | 67 | 66 | 98.5075 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1413 | 92.8877 | 99.6311 | 33.7242 | 13034 | 998 | 13234 | 49 | 49 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1489 | 92.9019 | 99.6311 | 33.4986 | 13036 | 996 | 13232 | 49 | 48 | 97.9592 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.0877 | 94.7254 | 99.5709 | 28.2155 | 13038 | 726 | 13226 | 57 | 56 | 98.2456 | |
| ckim-vqsr | SNP | * | map_l150_m2_e0 | het | 78.1444 | 64.8041 | 98.4007 | 91.6936 | 13047 | 7086 | 13044 | 212 | 2 | 0.9434 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | het | 81.4281 | 69.2308 | 98.8426 | 88.6749 | 13068 | 5808 | 13066 | 153 | 3 | 1.9608 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2310 | 94.8350 | 97.6687 | 49.0598 | 13073 | 712 | 13071 | 312 | 308 | 98.7179 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.4523 | 93.1870 | 99.9548 | 33.8499 | 13076 | 956 | 13269 | 6 | 5 | 83.3333 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.9133 | 95.0643 | 57.8299 | 64.8667 | 13078 | 679 | 12962 | 9452 | 8806 | 93.1655 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.9133 | 95.0643 | 57.8299 | 64.8667 | 13078 | 679 | 12962 | 9452 | 8806 | 93.1655 | |
| hfeng-pmm2 | SNP | * | HG002compoundhet | het | 95.9129 | 92.2768 | 99.8474 | 42.7742 | 13083 | 1095 | 13083 | 20 | 3 | 15.0000 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | het | 76.0794 | 61.7119 | 99.1672 | 89.0304 | 13086 | 8119 | 13098 | 110 | 34 | 30.9091 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 91.1346 | 84.9322 | 98.3142 | 43.5277 | 13094 | 2323 | 13472 | 231 | 203 | 87.8788 | |
| jpowers-varprowl | SNP | * | HG002compoundhet | het | 94.4520 | 92.3614 | 96.6395 | 53.1760 | 13095 | 1083 | 13286 | 462 | 40 | 8.6580 | |
| raldana-dualsentieon | SNP | * | HG002compoundhet | het | 95.9874 | 92.3755 | 99.8932 | 43.8424 | 13097 | 1081 | 13096 | 14 | 7 | 50.0000 | |
| hfeng-pmm1 | SNP | * | HG002compoundhet | het | 96.0618 | 92.4743 | 99.9390 | 43.1383 | 13111 | 1067 | 13110 | 8 | 4 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9360 | 95.1324 | 98.8093 | 46.5673 | 13114 | 671 | 13112 | 158 | 151 | 95.5696 | |
| hfeng-pmm3 | SNP | * | HG002compoundhet | het | 96.0659 | 92.5730 | 99.8327 | 43.9121 | 13125 | 1053 | 13125 | 22 | 5 | 22.7273 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.0812 | 74.2799 | 86.8654 | 57.3222 | 13126 | 4545 | 13260 | 2005 | 1766 | 88.0798 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.0812 | 74.2799 | 86.8654 | 57.3222 | 13126 | 4545 | 13260 | 2005 | 1766 | 88.0798 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9540 | 95.2267 | 96.6924 | 48.5132 | 13127 | 658 | 13126 | 449 | 442 | 98.4410 | |
| ckim-gatk | SNP | ti | map_l100_m1_e0 | homalt | 84.4316 | 73.0902 | 99.9391 | 65.0795 | 13127 | 4833 | 13127 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9900 | 95.2557 | 98.7886 | 47.4309 | 13131 | 654 | 13129 | 161 | 155 | 96.2733 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 93.6075 | 0.0000 | 0.0000 | 13135 | 897 | 0 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6962 | 93.6431 | 99.9550 | 34.4875 | 13140 | 892 | 13333 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.1389 | 95.5295 | 98.8034 | 63.4805 | 13142 | 615 | 13129 | 159 | 34 | 21.3836 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1389 | 95.5295 | 98.8034 | 63.4805 | 13142 | 615 | 13129 | 159 | 34 | 21.3836 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7231 | 93.7001 | 99.9475 | 34.6971 | 13148 | 884 | 13337 | 7 | 6 | 85.7143 | |
| gduggal-bwafb | INDEL | I1_5 | HG002complexvar | homalt | 98.3809 | 97.8212 | 98.9471 | 49.0711 | 13155 | 293 | 13156 | 140 | 134 | 95.7143 | |
| ciseli-custom | SNP | ti | map_l125_m1_e0 | het | 77.4977 | 72.0300 | 83.8636 | 79.8833 | 13157 | 5109 | 13154 | 2531 | 72 | 2.8447 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1286 | 95.4588 | 98.8579 | 46.1719 | 13159 | 626 | 13157 | 152 | 147 | 96.7105 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.0676 | 74.4893 | 86.5491 | 57.6750 | 13163 | 4508 | 13345 | 2074 | 1774 | 85.5352 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.0676 | 74.4893 | 86.5491 | 57.6750 | 13163 | 4508 | 13345 | 2074 | 1774 | 85.5352 | |
| anovak-vg | SNP | ti | HG002compoundhet | * | 77.8164 | 75.3290 | 80.4737 | 38.3806 | 13166 | 4312 | 13522 | 3281 | 2578 | 78.5736 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4824 | 95.5531 | 99.4912 | 43.7067 | 13172 | 613 | 13100 | 67 | 62 | 92.5373 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.5565 | 95.7135 | 99.4720 | 43.1314 | 13174 | 590 | 13375 | 71 | 70 | 98.5915 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 94.1491 | 90.4125 | 98.2078 | 67.8829 | 13174 | 1397 | 13261 | 242 | 122 | 50.4132 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 94.1491 | 90.4125 | 98.2078 | 67.8829 | 13174 | 1397 | 13261 | 242 | 122 | 50.4132 | |