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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70901-70950 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8137 | 96.5992 | 99.0592 | 63.6797 | 6107 | 215 | 6107 | 58 | 48 | 82.7586 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8137 | 96.5992 | 99.0592 | 63.6797 | 6107 | 215 | 6107 | 58 | 48 | 82.7586 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.9709 | 95.0352 | 98.9871 | 50.1046 | 2833 | 148 | 2834 | 29 | 24 | 82.7586 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m1_e0 | homalt | 97.4137 | 98.4797 | 96.3705 | 85.1515 | 583 | 9 | 770 | 29 | 24 | 82.7586 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4527 | 93.8414 | 99.2135 | 55.2222 | 3657 | 240 | 3658 | 29 | 24 | 82.7586 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | hetalt | 89.6769 | 82.4118 | 98.3466 | 51.6538 | 1729 | 369 | 1725 | 29 | 24 | 82.7586 | |
| ghariani-varprowl | SNP | * | HG002compoundhet | homalt | 89.8311 | 99.8331 | 81.6508 | 42.6198 | 10764 | 18 | 10773 | 2421 | 2004 | 82.7757 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4189 | 94.5959 | 94.2426 | 73.7195 | 2013 | 115 | 1997 | 122 | 101 | 82.7869 | |
| qzeng-custom | SNP | ti | map_l125_m1_e0 | het | 82.7364 | 72.3585 | 96.5897 | 86.1572 | 13217 | 5049 | 13170 | 465 | 385 | 82.7957 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 65.9654 | 55.6526 | 80.9698 | 74.3202 | 8669 | 6908 | 8633 | 2029 | 1680 | 82.7994 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 66.3759 | 1406 | 480 | 1401 | 64 | 53 | 82.8125 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 80.0000 | 94.8570 | 0 | 0 | 256 | 64 | 53 | 82.8125 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.4573 | 73.9961 | 93.1034 | 68.3567 | 2635 | 926 | 2673 | 198 | 164 | 82.8283 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.6705 | 87.5205 | 85.8369 | 72.0400 | 533 | 76 | 600 | 99 | 82 | 82.8283 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | * | 98.5659 | 98.1119 | 99.0241 | 34.3630 | 17148 | 330 | 17148 | 169 | 140 | 82.8402 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.3271 | 94.3866 | 98.3491 | 65.6458 | 2085 | 124 | 2085 | 35 | 29 | 82.8571 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0441 | 98.5197 | 99.5742 | 73.0561 | 32744 | 492 | 32737 | 140 | 116 | 82.8571 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 32.7016 | 22.2672 | 61.5385 | 82.5000 | 55 | 192 | 56 | 35 | 29 | 82.8571 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7466 | 96.0553 | 99.4986 | 53.1009 | 2362 | 97 | 6945 | 35 | 29 | 82.8571 | |
| eyeh-varpipe | INDEL | I1_5 | segdup | * | 95.8185 | 94.8064 | 96.8525 | 93.2732 | 1004 | 55 | 1077 | 35 | 29 | 82.8571 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 68.7500 | 53.2425 | 97.0034 | 79.7187 | 1133 | 995 | 1133 | 35 | 29 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m1_e0 | * | 68.5128 | 66.6667 | 70.4641 | 88.9767 | 172 | 86 | 167 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m1_e0 | het | 77.6064 | 99.2063 | 63.7306 | 90.0052 | 125 | 1 | 123 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e0 | * | 69.2012 | 67.4242 | 71.0744 | 89.5419 | 178 | 86 | 172 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e0 | het | 78.1594 | 99.2366 | 64.4670 | 90.5379 | 130 | 1 | 127 | 70 | 58 | 82.8571 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.1189 | 91.5878 | 81.2663 | 80.6056 | 871 | 80 | 937 | 216 | 179 | 82.8704 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 23.2825 | 16.1074 | 41.9847 | 51.3011 | 24 | 125 | 55 | 76 | 63 | 82.8947 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e1 | * | 67.9623 | 66.1818 | 69.8413 | 89.4073 | 182 | 93 | 176 | 76 | 63 | 82.8947 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e1 | het | 77.2912 | 99.2593 | 63.2850 | 90.3316 | 134 | 1 | 131 | 76 | 63 | 82.8947 | |
| ciseli-custom | INDEL | I1_5 | HG002compoundhet | het | 44.8253 | 57.3616 | 36.7858 | 80.5882 | 487 | 362 | 998 | 1715 | 1422 | 82.9155 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.6054 | 94.5304 | 98.7736 | 51.8161 | 3301 | 191 | 3302 | 41 | 34 | 82.9268 | |
| 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 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 63.6275 | 87.0968 | 50.1217 | 72.1733 | 54 | 8 | 206 | 205 | 170 | 82.9268 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5751 | 94.4731 | 98.7728 | 51.8310 | 3299 | 193 | 3300 | 41 | 34 | 82.9268 | |
| qzeng-custom | SNP | tv | map_l125_m1_e0 | het | 85.2256 | 76.2789 | 96.5500 | 86.2555 | 7724 | 2402 | 7724 | 276 | 229 | 82.9710 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m0_e0 | * | 68.2636 | 57.4739 | 84.0407 | 76.2404 | 496 | 367 | 495 | 94 | 78 | 82.9787 | |
| anovak-vg | SNP | * | map_l125_m1_e0 | homalt | 89.5021 | 81.4552 | 99.3132 | 65.1171 | 13770 | 3135 | 13593 | 94 | 78 | 82.9787 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 23.1772 | 16.4208 | 39.3809 | 42.5111 | 345 | 1756 | 458 | 705 | 585 | 82.9787 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7382 | 91.0643 | 98.7211 | 59.2029 | 3628 | 356 | 3628 | 47 | 39 | 82.9787 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.0485 | 48.1459 | 91.3123 | 63.3492 | 4025 | 4335 | 4015 | 382 | 317 | 82.9843 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.0485 | 48.1459 | 91.3123 | 63.3492 | 4025 | 4335 | 4015 | 382 | 317 | 82.9843 | |
| jlack-gatk | INDEL | D1_5 | HG002compoundhet | het | 92.3786 | 97.8009 | 87.5259 | 78.5190 | 1690 | 38 | 1691 | 241 | 200 | 82.9876 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | hetalt | 85.1313 | 74.5631 | 99.1899 | 56.3007 | 18775 | 6405 | 18000 | 147 | 122 | 82.9932 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | * | 72.4372 | 57.6760 | 97.3531 | 65.4535 | 3678 | 2699 | 3678 | 100 | 83 | 83.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 81.2972 | 84.9765 | 77.9232 | 58.9542 | 905 | 160 | 893 | 253 | 210 | 83.0040 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 66.0256 | 95.9130 | 0 | 0 | 103 | 53 | 44 | 83.0189 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4059 | 99.3368 | 99.4750 | 48.7096 | 10035 | 67 | 10043 | 53 | 44 | 83.0189 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | het | 95.4593 | 97.4118 | 93.5835 | 85.3129 | 828 | 22 | 773 | 53 | 44 | 83.0189 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 79.7753 | 86.5705 | 73.9693 | 64.8607 | 3062 | 475 | 3032 | 1067 | 886 | 83.0366 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 31.2083 | 26.2195 | 38.5417 | 39.6226 | 43 | 121 | 74 | 118 | 98 | 83.0508 | |