PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11901-11950 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.6617 | 94.2604 | 99.1884 | 62.0692 | 5009 | 305 | 5011 | 41 | 34 | 82.9268 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.3504 | 84.7561 | 81.9905 | 78.4033 | 139 | 25 | 173 | 38 | 34 | 89.4737 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.7226 | 63.9247 | 99.1164 | 40.0903 | 3769 | 2127 | 3814 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 77.7226 | 63.9247 | 99.1164 | 40.0903 | 3769 | 2127 | 3814 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | HG002compoundhet | hetalt | 71.1432 | 55.4293 | 99.2920 | 28.6902 | 4732 | 3805 | 4768 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 72.9780 | 57.9977 | 98.3917 | 46.7104 | 2045 | 1481 | 2080 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 72.9780 | 57.9977 | 98.3917 | 46.7104 | 2045 | 1481 | 2080 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 46.2359 | 35.4839 | 66.3366 | 79.0456 | 66 | 120 | 67 | 34 | 34 | 100.0000 | |
| mlin-fermikit | SNP | ti | func_cds | * | 99.5022 | 99.3109 | 99.6942 | 17.8687 | 13692 | 95 | 13692 | 42 | 34 | 80.9524 | |
| mlin-fermikit | SNP | ti | func_cds | homalt | 99.5745 | 99.8294 | 99.3210 | 18.8179 | 5266 | 9 | 5266 | 36 | 34 | 94.4444 | |
| qzeng-custom | SNP | tv | map_l150_m2_e0 | homalt | 81.9655 | 70.0220 | 98.8211 | 73.9641 | 2859 | 1224 | 2850 | 34 | 34 | 100.0000 | |
| qzeng-custom | INDEL | * | segdup | * | 96.6734 | 97.6526 | 95.7138 | 94.7770 | 2496 | 60 | 2568 | 115 | 34 | 29.5652 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.4464 | 92.3899 | 98.7120 | 46.6442 | 3630 | 299 | 3602 | 47 | 34 | 72.3404 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.1891 | 97.1291 | 99.2726 | 27.7365 | 4635 | 137 | 4640 | 34 | 34 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4978 | 99.2429 | 99.7541 | 54.5635 | 25167 | 192 | 25148 | 62 | 34 | 54.8387 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.2758 | 93.3345 | 99.4086 | 38.9346 | 5503 | 393 | 6051 | 36 | 34 | 94.4444 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.2758 | 93.3345 | 99.4086 | 38.9346 | 5503 | 393 | 6051 | 36 | 34 | 94.4444 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.2899 | 99.4234 | 97.1820 | 55.6903 | 1207 | 7 | 1207 | 35 | 34 | 97.1429 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6773 | 98.9323 | 98.4237 | 61.2579 | 55037 | 594 | 55072 | 882 | 34 | 3.8549 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4185 | 97.0953 | 97.7438 | 76.1583 | 27878 | 834 | 27900 | 644 | 34 | 5.2795 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4185 | 97.0953 | 97.7438 | 76.1583 | 27878 | 834 | 27900 | 644 | 34 | 5.2795 | |
| bgallagher-sentieon | SNP | * | HG002complexvar | homalt | 99.9685 | 99.9494 | 99.9875 | 19.8511 | 288428 | 146 | 288403 | 36 | 34 | 94.4444 | |
| astatham-gatk | SNP | * | HG002complexvar | homalt | 99.9516 | 99.9158 | 99.9875 | 19.8527 | 288331 | 243 | 288306 | 36 | 34 | 94.4444 | |
| astatham-gatk | SNP | * | HG002compoundhet | * | 99.2284 | 98.6058 | 99.8588 | 41.2826 | 25462 | 360 | 25455 | 36 | 34 | 94.4444 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6046 | 94.9346 | 96.2841 | 59.3488 | 1162 | 62 | 1166 | 45 | 34 | 75.5556 | |
| anovak-vg | SNP | ti | map_l150_m1_e0 | homalt | 88.1795 | 79.2821 | 99.3263 | 69.9803 | 5809 | 1518 | 5750 | 39 | 34 | 87.1795 | |
| anovak-vg | INDEL | * | map_l250_m2_e0 | homalt | 72.3983 | 74.7826 | 70.1613 | 95.5950 | 86 | 29 | 87 | 37 | 34 | 91.8919 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | homalt | 72.6272 | 75.0000 | 70.4000 | 95.6911 | 87 | 29 | 88 | 37 | 34 | 91.8919 | |
| anovak-vg | INDEL | D1_5 | segdup | het | 93.3306 | 94.0751 | 92.5978 | 95.1126 | 651 | 41 | 663 | 53 | 34 | 64.1509 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 65.0593 | 53.4989 | 82.9932 | 36.5011 | 237 | 206 | 244 | 50 | 34 | 68.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 9.6515 | 5.6250 | 33.9623 | 61.7329 | 27 | 453 | 36 | 70 | 34 | 48.5714 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8698 | 97.4170 | 96.3288 | 83.1947 | 1320 | 35 | 1207 | 46 | 34 | 73.9130 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | het | 65.0768 | 88.4615 | 51.4706 | 92.9130 | 69 | 9 | 70 | 66 | 34 | 51.5152 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 83.2248 | 80.8271 | 85.7692 | 82.1796 | 215 | 51 | 223 | 37 | 34 | 91.8919 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 89.3757 | 99.3548 | 81.2183 | 83.8259 | 154 | 1 | 160 | 37 | 34 | 91.8919 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | het | 76.0794 | 61.7119 | 99.1672 | 89.0304 | 13086 | 8119 | 13098 | 110 | 34 | 30.9091 | |
| gduggal-bwaplat | SNP | ti | map_l125_m2_e0 | * | 75.8315 | 61.2995 | 99.3947 | 87.0105 | 18548 | 11710 | 18555 | 113 | 34 | 30.0885 | |
| gduggal-bwaplat | SNP | ti | map_l125_m2_e1 | * | 76.0359 | 61.5656 | 99.3981 | 86.9873 | 18820 | 11749 | 18827 | 114 | 34 | 29.8246 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 86.7364 | 78.3970 | 97.0612 | 92.7953 | 7160 | 1973 | 7167 | 217 | 34 | 15.6682 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 86.7364 | 78.3970 | 97.0612 | 92.7953 | 7160 | 1973 | 7167 | 217 | 34 | 15.6682 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 84.3374 | 74.7117 | 96.8102 | 79.6075 | 3628 | 1228 | 3642 | 120 | 34 | 28.3333 | |
| eyeh-varpipe | SNP | * | map_l100_m1_e0 | het | 97.9959 | 99.6627 | 96.3839 | 70.0308 | 45206 | 153 | 43739 | 1641 | 34 | 2.0719 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e0 | het | 97.9986 | 99.6659 | 96.3860 | 71.4860 | 46244 | 155 | 44753 | 1678 | 34 | 2.0262 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e1 | het | 98.0064 | 99.6695 | 96.3978 | 71.5205 | 46743 | 155 | 45226 | 1690 | 34 | 2.0118 | |
| eyeh-varpipe | SNP | ti | map_siren | het | 99.1597 | 99.7515 | 98.5748 | 60.2517 | 62227 | 155 | 60657 | 877 | 34 | 3.8769 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m1_e0 | het | 94.4243 | 97.9408 | 91.1515 | 88.7786 | 761 | 16 | 752 | 73 | 34 | 46.5753 | |
| gduggal-bwavard | SNP | * | map_l250_m2_e0 | het | 87.1650 | 97.8052 | 78.6127 | 93.0154 | 5080 | 114 | 5032 | 1369 | 34 | 2.4836 | |
| gduggal-bwavard | SNP | tv | map_l125_m0_e0 | * | 92.0149 | 97.7077 | 86.9489 | 82.9272 | 6479 | 152 | 6469 | 971 | 34 | 3.5015 | |
| gduggal-bwavard | SNP | tv | segdup | * | 98.0164 | 97.1871 | 98.8601 | 94.3820 | 8292 | 240 | 8239 | 95 | 34 | 35.7895 | |
| gduggal-bwafb | SNP | ti | map_l150_m0_e0 | het | 98.0450 | 97.9007 | 98.1897 | 82.8404 | 4990 | 107 | 4990 | 92 | 34 | 36.9565 | |