PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60201-60250 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e0 | * | 97.5922 | 96.4181 | 98.7952 | 83.8737 | 1319 | 49 | 1312 | 16 | 5 | 31.2500 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 75.6632 | 61.3084 | 98.7952 | 82.4710 | 328 | 207 | 328 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m0_e0 | homalt | 97.6190 | 96.4706 | 98.7952 | 89.0933 | 82 | 3 | 82 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.3649 | 84.9741 | 98.7952 | 90.6820 | 328 | 58 | 328 | 4 | 1 | 25.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l150_m0_e0 | homalt | 97.6190 | 96.4706 | 98.7952 | 90.1425 | 82 | 3 | 82 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m0_e0 | het | 58.0395 | 41.0891 | 98.7952 | 83.7573 | 83 | 119 | 82 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | segdup | het | 98.7952 | 98.7952 | 98.7952 | 92.9780 | 82 | 1 | 82 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_siren | * | 97.7160 | 96.6601 | 98.7952 | 83.3612 | 492 | 17 | 492 | 6 | 1 | 16.6667 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | hetalt | 85.0270 | 74.6269 | 98.7952 | 62.9464 | 250 | 85 | 246 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m1_e0 | het | 91.2276 | 84.7368 | 98.7952 | 90.9635 | 161 | 29 | 164 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8024 | 98.8095 | 98.7952 | 79.1980 | 166 | 2 | 164 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | D6_15 | * | het | 96.0906 | 93.5300 | 98.7954 | 45.4106 | 10842 | 750 | 17633 | 215 | 165 | 76.7442 | |
| anovak-vg | SNP | tv | func_cds | * | 98.2741 | 97.7580 | 98.7957 | 36.4158 | 4273 | 98 | 4266 | 52 | 32 | 61.5385 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0489 | 99.3034 | 98.7958 | 56.9516 | 11404 | 80 | 11404 | 139 | 132 | 94.9640 | |
| ciseli-custom | SNP | ti | func_cds | homalt | 99.3195 | 99.8483 | 98.7963 | 20.7719 | 5267 | 8 | 5253 | 64 | 29 | 45.3125 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8808 | 96.9816 | 98.7968 | 67.2217 | 739 | 23 | 739 | 9 | 5 | 55.5556 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.8162 | 96.8548 | 98.7969 | 68.2925 | 3449 | 112 | 3449 | 42 | 28 | 66.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m1_e0 | * | 98.3132 | 97.8342 | 98.7970 | 80.6967 | 1310 | 29 | 1314 | 16 | 2 | 12.5000 | |
| jli-custom | INDEL | D1_5 | map_l100_m2_e0 | * | 98.6673 | 98.5379 | 98.7971 | 83.0195 | 1887 | 28 | 1889 | 23 | 8 | 34.7826 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9059 | 99.0142 | 98.7978 | 89.1921 | 904 | 9 | 904 | 11 | 6 | 54.5455 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e0 | het | 98.3621 | 97.9299 | 98.7981 | 81.8710 | 1230 | 26 | 1233 | 15 | 3 | 20.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7995 | 96.8208 | 98.7981 | 64.4748 | 335 | 11 | 411 | 5 | 4 | 80.0000 | |
| gduggal-bwafb | SNP | tv | map_siren | * | 99.0828 | 99.3686 | 98.7986 | 61.3728 | 45640 | 290 | 45640 | 555 | 80 | 14.4144 | |
| qzeng-custom | SNP | * | map_l250_m0_e0 | homalt | 69.0753 | 53.1002 | 98.7988 | 95.2759 | 334 | 295 | 329 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 64.0965 | 47.4352 | 98.7989 | 37.2929 | 3403 | 3771 | 2879 | 35 | 30 | 85.7143 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e0 | * | 98.7206 | 98.6423 | 98.7990 | 83.5904 | 1889 | 26 | 1892 | 23 | 9 | 39.1304 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3482 | 99.9034 | 98.7991 | 36.8548 | 7240 | 7 | 7240 | 88 | 87 | 98.8636 | |
| gduggal-bwafb | INDEL | I1_5 | map_siren | het | 97.2030 | 95.6573 | 98.7995 | 79.6283 | 1608 | 73 | 1646 | 20 | 10 | 50.0000 | |
| jli-custom | SNP | tv | map_l250_m2_e1 | het | 97.5522 | 96.3359 | 98.7996 | 86.4727 | 1893 | 72 | 1893 | 23 | 8 | 34.7826 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.0530 | 95.3668 | 98.8000 | 56.7474 | 247 | 12 | 247 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | INDEL | * | map_l100_m0_e0 | * | 73.0645 | 57.9655 | 98.8004 | 94.3818 | 906 | 657 | 906 | 11 | 2 | 18.1818 | |
| gduggal-bwafb | SNP | * | map_l125_m1_e0 | * | 98.8277 | 98.8550 | 98.8005 | 72.4101 | 44808 | 519 | 44808 | 544 | 134 | 24.6324 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8189 | 94.9153 | 98.8005 | 65.6974 | 2520 | 135 | 2471 | 30 | 22 | 73.3333 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0722 | 99.3449 | 98.8011 | 64.3152 | 18047 | 119 | 18047 | 219 | 203 | 92.6941 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0722 | 99.3449 | 98.8011 | 64.3152 | 18047 | 119 | 18047 | 219 | 203 | 92.6941 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9463 | 95.1598 | 98.8011 | 63.5083 | 6016 | 306 | 6016 | 73 | 59 | 80.8219 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9463 | 95.1598 | 98.8011 | 63.5083 | 6016 | 306 | 6016 | 73 | 59 | 80.8219 | |
| egarrison-hhga | SNP | ti | * | hetalt | 98.9708 | 99.1409 | 98.8014 | 49.0846 | 577 | 5 | 577 | 7 | 7 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6004 | 98.3998 | 98.8017 | 51.3514 | 3628 | 59 | 3628 | 44 | 28 | 63.6364 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | het | 99.0261 | 99.2514 | 98.8018 | 75.8168 | 10474 | 79 | 10472 | 127 | 11 | 8.6614 | |
| qzeng-custom | SNP | * | map_l150_m0_e0 | homalt | 74.2731 | 59.5011 | 98.8021 | 79.7981 | 2433 | 1656 | 2392 | 29 | 29 | 100.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m0_e0 | het | 99.0069 | 99.2124 | 98.8022 | 73.2241 | 21038 | 167 | 21034 | 255 | 23 | 9.0196 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4377 | 98.0757 | 98.8024 | 44.1799 | 3211 | 63 | 9405 | 114 | 104 | 91.2281 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0756 | 95.4082 | 98.8024 | 34.2002 | 748 | 36 | 825 | 10 | 9 | 90.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0959 | 99.3912 | 98.8024 | 75.4321 | 653 | 4 | 660 | 8 | 2 | 25.0000 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 98.8024 | 95.5691 | 0 | 0 | 165 | 2 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m2_e0 | * | 97.6373 | 96.4994 | 98.8024 | 86.4580 | 827 | 30 | 825 | 10 | 2 | 20.0000 | |
| raldana-dualsentieon | SNP | * | map_l125_m0_e0 | * | 98.7848 | 98.7671 | 98.8026 | 73.3692 | 19146 | 239 | 19143 | 232 | 9 | 3.8793 | |
| ckim-dragen | SNP | ti | func_cds | het | 99.3804 | 99.9647 | 98.8029 | 32.2466 | 8501 | 3 | 8501 | 103 | 1 | 0.9709 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | het | 99.0786 | 99.3556 | 98.8030 | 77.7194 | 10485 | 68 | 10483 | 127 | 22 | 17.3228 | |