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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70601-70650 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | D16_PLUS | map_siren | * | 64.7096 | 56.6434 | 75.4545 | 82.7316 | 81 | 62 | 83 | 27 | 22 | 81.4815 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.4993 | 94.2786 | 98.8271 | 62.5995 | 2274 | 138 | 2275 | 27 | 22 | 81.4815 | |
| ciseli-custom | INDEL | I1_5 | segdup | * | 88.5870 | 87.6298 | 89.5652 | 93.7669 | 928 | 131 | 927 | 108 | 88 | 81.4815 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8987 | 98.8832 | 98.9142 | 71.1221 | 17620 | 199 | 17218 | 189 | 154 | 81.4815 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0168 | 97.1706 | 98.8778 | 83.5902 | 2301 | 67 | 2379 | 27 | 22 | 81.4815 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 34.1463 | 100.0000 | 20.5882 | 69.9115 | 1 | 0 | 7 | 27 | 22 | 81.4815 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | * | 96.7706 | 94.9266 | 98.6878 | 59.5666 | 28440 | 1520 | 28503 | 379 | 309 | 81.5303 | |
| mlin-fermikit | INDEL | D6_15 | map_siren | * | 81.1872 | 77.0138 | 85.8388 | 82.0071 | 392 | 117 | 394 | 65 | 53 | 81.5385 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 36.5732 | 34.6847 | 38.6792 | 60.6679 | 77 | 145 | 82 | 130 | 106 | 81.5385 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | homalt | 69.4068 | 63.9344 | 75.9036 | 85.6497 | 819 | 462 | 819 | 260 | 212 | 81.5385 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8328 | 92.0195 | 97.8236 | 63.3039 | 1695 | 147 | 1708 | 38 | 31 | 81.5789 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 24.4790 | 14.1603 | 90.2314 | 68.8301 | 258 | 1564 | 351 | 38 | 31 | 81.5789 | |
| gduggal-snapvard | SNP | ti | map_l100_m1_e0 | homalt | 97.9288 | 96.1470 | 99.7778 | 60.0714 | 17268 | 692 | 17067 | 38 | 31 | 81.5789 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 67.0246 | 87.7551 | 54.2169 | 78.5530 | 43 | 6 | 45 | 38 | 31 | 81.5789 | |
| gduggal-bwavard | INDEL | * | segdup | het | 90.5367 | 97.4761 | 84.5196 | 96.2639 | 1429 | 37 | 1425 | 261 | 213 | 81.6092 | |
| mlin-fermikit | SNP | * | HG002compoundhet | * | 92.7673 | 91.9758 | 93.5725 | 42.5829 | 23750 | 2072 | 23759 | 1632 | 1332 | 81.6176 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9496 | 98.2541 | 99.6549 | 70.5915 | 92800 | 1649 | 92707 | 321 | 262 | 81.6199 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 47.1342 | 38.1966 | 61.5321 | 37.8247 | 2639 | 4270 | 5213 | 3259 | 2660 | 81.6201 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 48.9065 | 45.5178 | 52.8403 | 57.9746 | 8043 | 9627 | 8074 | 7206 | 5882 | 81.6264 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 48.9065 | 45.5178 | 52.8403 | 57.9746 | 8043 | 9627 | 8074 | 7206 | 5882 | 81.6264 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e0 | homalt | 78.2427 | 77.2727 | 79.2373 | 89.5806 | 187 | 55 | 187 | 49 | 40 | 81.6327 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e1 | homalt | 78.5276 | 77.4194 | 79.6680 | 89.5354 | 192 | 56 | 192 | 49 | 40 | 81.6327 | |
| ckim-dragen | SNP | * | * | homalt | 99.9725 | 99.9534 | 99.9917 | 17.1093 | 1179611 | 550 | 1179821 | 98 | 80 | 81.6327 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7838 | 96.2244 | 99.3945 | 58.5102 | 8079 | 317 | 8044 | 49 | 40 | 81.6327 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 23.1444 | 17.6107 | 33.7493 | 43.2911 | 370 | 1731 | 649 | 1274 | 1040 | 81.6327 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.8031 | 99.5995 | 90.4474 | 84.6880 | 1492 | 6 | 1496 | 158 | 129 | 81.6456 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9345 | 98.2816 | 99.5962 | 71.4015 | 92826 | 1623 | 92734 | 376 | 307 | 81.6489 | |
| qzeng-custom | SNP | tv | map_l150_m0_e0 | het | 79.7044 | 70.2075 | 92.1723 | 93.6869 | 1996 | 847 | 1990 | 169 | 138 | 81.6568 | |
| gduggal-snapvard | INDEL | D1_5 | segdup | * | 90.1625 | 92.8377 | 87.6372 | 94.9594 | 1024 | 79 | 1198 | 169 | 138 | 81.6568 | |
| ciseli-custom | SNP | ti | map_l125_m0_e0 | homalt | 86.4046 | 85.8606 | 86.9555 | 67.4980 | 3856 | 635 | 3853 | 578 | 472 | 81.6609 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.2637 | 97.8947 | 89.0511 | 87.2350 | 651 | 14 | 488 | 60 | 49 | 81.6667 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5976 | 99.8224 | 97.4026 | 57.6846 | 2248 | 4 | 2250 | 60 | 49 | 81.6667 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 74.3243 | 87.7660 | 64.4531 | 60.5344 | 495 | 69 | 495 | 273 | 223 | 81.6850 | |
| gduggal-bwafb | SNP | ti | HG002compoundhet | homalt | 99.3188 | 99.5943 | 99.0449 | 33.6250 | 7364 | 30 | 7363 | 71 | 58 | 81.6901 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3731 | 99.4054 | 99.3408 | 76.0979 | 47984 | 287 | 47771 | 317 | 259 | 81.7035 | |
| mlin-fermikit | INDEL | * | segdup | * | 95.7518 | 94.7966 | 96.7265 | 92.3178 | 2423 | 133 | 2423 | 82 | 67 | 81.7073 | |
| astatham-gatk | INDEL | I1_5 | * | * | 99.4616 | 99.2520 | 99.6722 | 58.6147 | 149537 | 1127 | 149586 | 492 | 402 | 81.7073 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 91.2907 | 89.1727 | 93.5118 | 37.7146 | 18366 | 2230 | 19068 | 1323 | 1081 | 81.7082 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 49.7630 | 39.5223 | 67.1670 | 73.6334 | 728 | 1114 | 716 | 350 | 286 | 81.7143 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 71.5090 | 85.4985 | 61.4537 | 75.3529 | 566 | 96 | 558 | 350 | 286 | 81.7143 | |
| ciseli-custom | SNP | ti | map_l150_m2_e0 | homalt | 87.0824 | 85.6618 | 88.5509 | 72.6120 | 6524 | 1092 | 6520 | 843 | 689 | 81.7319 | |
| qzeng-custom | SNP | * | map_l125_m2_e0 | het | 84.0186 | 74.3127 | 96.6407 | 86.6277 | 21787 | 7531 | 21605 | 751 | 614 | 81.7577 | |
| qzeng-custom | SNP | * | map_l125_m2_e1 | het | 84.1292 | 74.4636 | 96.6784 | 86.6172 | 22071 | 7569 | 21888 | 752 | 615 | 81.7819 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.0188 | 98.3264 | 97.7131 | 72.8249 | 470 | 8 | 470 | 11 | 9 | 81.8182 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.1825 | 84.1463 | 94.8598 | 82.1963 | 207 | 39 | 203 | 11 | 9 | 81.8182 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.2691 | 51.0539 | 98.5788 | 38.7173 | 872 | 836 | 763 | 11 | 9 | 81.8182 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.0308 | 95.2128 | 89.0547 | 65.6410 | 179 | 9 | 179 | 22 | 18 | 81.8182 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7617 | 99.7043 | 99.8191 | 54.9748 | 6070 | 18 | 6071 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1986 | 94.7313 | 99.7979 | 56.1836 | 5430 | 302 | 5431 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7912 | 95.8467 | 99.8163 | 67.9237 | 5977 | 259 | 5977 | 11 | 9 | 81.8182 | |