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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16951-17000 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.6355 | 82.0408 | 50.6542 | 55.8581 | 402 | 88 | 542 | 528 | 513 | 97.1591 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 81.2926 | 90.9091 | 73.5160 | 70.9163 | 880 | 88 | 966 | 348 | 303 | 87.0690 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 60.5449 | 60.3604 | 60.7306 | 57.8846 | 134 | 88 | 133 | 86 | 83 | 96.5116 | |
| raldana-dualsentieon | INDEL | * | map_siren | het | 98.4968 | 98.0479 | 98.9497 | 80.0579 | 4420 | 88 | 4428 | 47 | 5 | 10.6383 | |
| ndellapenna-hhga | SNP | tv | map_l250_m2_e0 | het | 97.2703 | 95.5155 | 99.0909 | 86.8763 | 1853 | 87 | 1853 | 17 | 8 | 47.0588 | |
| ndellapenna-hhga | SNP | tv | map_l250_m2_e1 | het | 97.3057 | 95.5725 | 99.1029 | 86.9625 | 1878 | 87 | 1878 | 17 | 8 | 47.0588 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.2776 | 57.7670 | 80.5369 | 88.2492 | 119 | 87 | 120 | 29 | 23 | 79.3103 | |
| mlin-fermikit | INDEL | I6_15 | HG002complexvar | homalt | 91.3948 | 92.8336 | 90.0000 | 56.7129 | 1127 | 87 | 1152 | 128 | 127 | 99.2188 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1272 | 97.5987 | 98.6615 | 84.6994 | 3536 | 87 | 3538 | 48 | 30 | 62.5000 | |
| anovak-vg | INDEL | D1_5 | map_l100_m1_e0 | homalt | 89.7866 | 85.3041 | 94.7664 | 81.8274 | 505 | 87 | 507 | 28 | 27 | 96.4286 | |
| anovak-vg | INDEL | D1_5 | map_l100_m2_e0 | homalt | 89.8935 | 85.7610 | 94.4444 | 82.5788 | 524 | 87 | 527 | 31 | 29 | 93.5484 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 76.4706 | 0 | 87 | 0 | 4 | 2 | 50.0000 | ||
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6673 | 97.7687 | 99.5826 | 65.8986 | 3812 | 87 | 3817 | 16 | 9 | 56.2500 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 44.9438 | 31.4961 | 78.4314 | 66.6667 | 40 | 87 | 40 | 11 | 11 | 100.0000 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | het | 92.6044 | 97.8749 | 87.8724 | 79.5506 | 4007 | 87 | 3775 | 521 | 513 | 98.4645 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.3152 | 95.0875 | 99.6497 | 51.5280 | 1684 | 87 | 1707 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e0 | homalt | 98.1866 | 96.7610 | 99.6549 | 90.0329 | 2599 | 87 | 2599 | 9 | 5 | 55.5556 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3938 | 98.9601 | 99.8314 | 43.2370 | 8279 | 87 | 8291 | 14 | 13 | 92.8571 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.0080 | 57.7670 | 99.1736 | 59.2593 | 119 | 87 | 120 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6163 | 97.7687 | 99.4788 | 68.1894 | 3812 | 87 | 3817 | 20 | 13 | 65.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.6357 | 90.3010 | 99.4076 | 53.2928 | 810 | 87 | 839 | 5 | 5 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 44.9438 | 31.4961 | 78.4314 | 66.6667 | 40 | 87 | 40 | 11 | 11 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m1_e0 | * | 68.3429 | 66.2791 | 70.5394 | 88.5238 | 171 | 87 | 170 | 71 | 65 | 91.5493 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e1 | hetalt | 0.0000 | 34.0909 | 0.0000 | 0.0000 | 45 | 87 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | homalt | 98.0400 | 96.4677 | 99.6644 | 87.9687 | 2376 | 87 | 2376 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7102 | 99.4704 | 99.9511 | 57.5377 | 16342 | 87 | 16340 | 8 | 1 | 12.5000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 16.9811 | 59.8485 | 0 | 87 | 9 | 44 | 12 | 27.2727 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m1_e0 | * | 90.7660 | 93.5026 | 88.1850 | 85.4828 | 1252 | 87 | 1754 | 235 | 108 | 45.9574 | |
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 87 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D16_PLUS | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 87 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 87 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 87 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D16_PLUS | map_l100_m1_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 87 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D6_15 | map_l100_m1_e0 | het | 43.8202 | 30.9524 | 75.0000 | 93.9394 | 39 | 87 | 27 | 9 | 1 | 11.1111 | |
| gduggal-snapplat | INDEL | D6_15 | map_siren | hetalt | 21.6216 | 12.1212 | 100.0000 | 96.0265 | 12 | 87 | 12 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 87 | 0 | 0 | 0 | |||
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 63.6016 | 46.9512 | 98.5507 | 57.2314 | 77 | 87 | 204 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9228 | 99.1388 | 98.7077 | 45.0241 | 10015 | 87 | 9777 | 128 | 46 | 35.9375 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 91.7821 | 85.1027 | 99.5992 | 26.0741 | 497 | 87 | 497 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002complexvar | hetalt | 77.8589 | 64.7773 | 97.5610 | 66.3244 | 160 | 87 | 160 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 14.2857 | 68.1818 | 0 | 87 | 2 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 54.1237 | 72.0257 | 43.3492 | 26.9375 | 224 | 87 | 1271 | 1661 | 1654 | 99.5786 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e1 | * | 94.0042 | 93.7634 | 94.2462 | 86.7599 | 1308 | 87 | 1294 | 79 | 38 | 48.1013 | |
| gduggal-bwavard | SNP | tv | map_l150_m1_e0 | homalt | 98.7838 | 97.7952 | 99.7926 | 71.2507 | 3859 | 87 | 3849 | 8 | 6 | 75.0000 | |
| ciseli-custom | SNP | * | func_cds | het | 97.0747 | 99.2205 | 95.0198 | 27.5142 | 11074 | 87 | 11047 | 579 | 4 | 0.6908 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.2014 | 93.3840 | 97.0909 | 41.7126 | 1228 | 87 | 1335 | 40 | 33 | 82.5000 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | homalt | 83.7687 | 85.9677 | 81.6794 | 83.9066 | 533 | 87 | 535 | 120 | 103 | 85.8333 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 27.6134 | 19.4444 | 47.6190 | 91.1579 | 21 | 87 | 20 | 22 | 11 | 50.0000 | |