get_snps_within_region()
get_snps_within_region(
df,
region,
chr = NULL,
xmin = NULL,
xmax = NULL,
keep_chr = NULL
)data frame of association results with the columns CHR and POS
A string representing the genetic region (e.g chr16:50693587-50734041)
A string, chromosome (e.g. chr16)
An integer, include variants with POS larger than xmin
An integer, include variants with POS smaller than xmax
Deprecated: Logical, set to FALSE to remove the "chr" prefix before each chromosome if present (TRUE by default)
the variants within the requested region
get_snps_within_region(CD_UKBB, "chr16:50593587-50834041")
#> CHROM POS ID REF ALT P OR AF
#> 1 chr16 50598560 rs72796315 C G 3.58473e-09 1.346800 0.05833
#> 2 chr16 50612997 rs74460821 G A 2.85497e-12 1.553170 0.03117
#> 3 chr16 50612997 rs74460821 G A 2.85497e-12 1.553170 0.03117
#> 4 chr16 50627053 rs146528649 G T 7.91289e-18 1.827460 0.02144
#> 5 chr16 50627362 rs9673419 A C 4.73158e-05 1.131810 0.23684
#> 6 chr16 50644278 rs76870746 G A 9.50954e-04 0.829220 0.06980
#> 7 chr16 50658453 rs1109863 G A 8.87619e-04 0.909189 0.70176
#> 8 chr16 50660100 rs2357623 A G 1.49239e-04 0.894224 0.72593
#> 9 chr16 50664160 rs62029061 G C 1.73488e-06 1.206140 0.12973
#> 10 chr16 50664160 rs62029061 G C 1.73488e-06 1.206140 0.12973
#> 11 chr16 50669105 rs74017766 C T 2.51719e-04 0.571285 0.01341
#> 12 chr16 50669105 rs74017766 C T 2.51719e-04 0.571285 0.01341
#> 13 chr16 50671044 rs113593279 A C 6.13604e-06 1.535360 0.01353
#> 14 chr16 50671044 rs113593279 A C 6.13604e-06 1.535360 0.01353
#> 15 chr16 50675812 rs6596 G A 2.42868e-10 1.237170 0.16487
#> 16 chr16 50675812 rs6596 G A 2.42868e-10 1.237170 0.16487
#> 17 chr16 50681274 rs2066848 G A 6.47450e-04 0.910247 0.40705
#> 18 chr16 50685832 rs113593463 G A 1.89708e-04 1.409160 0.01573
#> 19 chr16 50691282 rs7194886 C T 3.73388e-05 0.893024 0.41111
#> 20 chr16 50692911 rs111164073 G A 4.43509e-05 1.436840 0.01657
#> 21 chr16 50696318 rs2066850 G A 1.38360e-10 1.203300 0.27591
#> 22 chr16 50696535 rs4785224 G A 6.82391e-05 0.894211 0.38552
#> 23 chr16 50697185 rs2076752 G A 1.49487e-10 1.202640 0.27884
#> 24 chr16 50699463 rs2076753 G T 1.11539e-11 1.216120 0.27385
#> 25 chr16 50699948 rs2067085 C G 4.73868e-05 0.892037 0.38631
#> 26 chr16 50702030 rs8045009 C T 1.73347e-04 0.900101 0.37979
#> 27 chr16 50702745 rs6500328 A G 1.45419e-05 0.885959 0.39350
#> 28 chr16 50703587 rs7500036 C T 1.05973e-12 1.225730 0.27853
#> 29 chr16 50704532 rs71715899 C CT 3.15880e-05 0.885554 0.37391
#> 30 chr16 50704919 rs11649521 G A 1.29633e-12 1.224780 0.27753
#> 31 chr16 50705539 rs62027635 G A 1.49707e-12 1.223930 0.27758
#> 32 chr16 50705671 rs17221417 C G 2.31980e-12 1.220750 0.28288
#> 33 chr16 50706853 rs11642482 C G 6.21162e-05 0.893965 0.38409
#> 34 chr16 50707275 rs11642646 C A 7.78535e-05 0.895319 0.38396
#> 35 chr16 50707551 rs17312836 A C 5.82419e-05 0.893611 0.38461
#> 36 chr16 50708770 rs13380733 G A 3.18412e-12 1.220770 0.27891
#> 37 chr16 50708770 rs13380733 G A 3.18412e-12 1.220770 0.27891
#> 38 chr16 50709027 rs13380741 G A 3.07955e-12 1.220930 0.27889
#> 39 chr16 50709027 rs13380741 G A 3.07955e-12 1.220930 0.27889
#> 40 chr16 50709420 rs11647841 G A 1.00487e-04 0.896854 0.38301
#> 41 chr16 50709420 rs11647841 G A 1.00487e-04 0.896854 0.38301
#> 42 chr16 50710008 rs34133110 C T 1.02050e-04 0.896942 0.38298
#> 43 chr16 50710008 rs34133110 C T 1.02050e-04 0.896942 0.38298
#> 44 chr16 50710713 rs2066842 C T 3.37052e-11 1.213830 0.25718
#> 45 chr16 50710713 rs2066842 C T 3.37052e-11 1.213830 0.25718
#> 46 chr16 50711288 rs2066843 C T 2.75401e-11 1.214430 0.25873
#> 47 chr16 50711288 rs2066843 C T 2.75401e-11 1.214430 0.25873
#> 48 chr16 50711672 rs1861759 T G 3.33584e-04 0.904377 0.37990
#> 49 chr16 50711672 rs1861759 T G 3.33584e-04 0.904377 0.37990
#> 50 chr16 50712015 rs2066844 C T 5.93912e-12 1.455510 0.04507
#> 51 chr16 50712015 rs2066844 C T 5.93912e-12 1.455510 0.04507
#> 52 chr16 50713793 rs17313265 C T 2.32706e-11 1.215370 0.26023
#> 53 chr16 50713793 rs17313265 C T 2.32706e-11 1.215370 0.26023
#> 54 chr16 50713828 rs72796355 C G 1.62154e-11 1.217060 0.25944
#> 55 chr16 50713828 rs72796355 C G 1.62154e-11 1.217060 0.25944
#> 56 chr16 50715420 rs67189633 CT C 3.34680e-05 0.889256 0.38543
#> 57 chr16 50715420 rs67189633 CT C 3.34680e-05 0.889256 0.38543
#> 58 chr16 50715497 rs62029863 G T 3.71978e-11 1.212980 0.25910
#> 59 chr16 50715497 rs62029863 G T 3.71978e-11 1.212980 0.25910
#> 60 chr16 50717487 rs748855 A G 3.10796e-04 0.903845 0.37970
#> 61 chr16 50717487 rs748855 A G 3.10796e-04 0.903845 0.37970
#> 62 chr16 50717876 rs1861758 G A 3.67778e-04 0.904828 0.37835
#> 63 chr16 50717876 rs1861758 G A 3.67778e-04 0.904828 0.37835
#> 64 chr16 50718253 rs62029864 G A 9.78587e-12 1.224300 0.24162
#> 65 chr16 50718253 rs62029864 G A 9.78587e-12 1.224300 0.24162
#> 66 chr16 50718904 rs1861757 T C 6.72056e-04 0.909167 0.37735
#> 67 chr16 50719513 rs7203691 G A 3.34468e-04 0.904294 0.37862
#> 68 chr16 50721366 rs34103974 GT G 3.79479e-06 0.878895 0.40463
#> 69 chr16 50721798 rs10521209 T G 7.36602e-05 0.895627 0.39450
#> 70 chr16 50722629 rs2066845 G C 2.09283e-10 1.825030 0.01147
#> 71 chr16 50722629 rs2066845 G C 2.09283e-10 1.825030 0.01147
#> 72 chr16 50722863 rs5743289 C T 1.37425e-11 1.252000 0.16818
#> 73 chr16 50722863 rs5743289 C T 1.37425e-11 1.252000 0.16818
#> 74 chr16 50722970 rs2076756 A G 9.33259e-12 1.224290 0.24209
#> 75 chr16 50722970 rs2076756 A G 9.33259e-12 1.224290 0.24209
#> 76 chr16 50724938 rs749910 G A 6.74142e-12 1.225950 0.24182
#> 77 chr16 50724938 rs749910 G A 6.74142e-12 1.225950 0.24182
#> 78 chr16 50725356 rs138198313 AC A 7.68901e-04 0.906595 0.36626
#> 79 chr16 50725356 rs138198313 AC A 7.68901e-04 0.906595 0.36626
#> 80 chr16 50725358 rs4990643 T A 6.43316e-05 0.894343 0.39302
#> 81 chr16 50725358 rs4990643 T A 6.43316e-05 0.894343 0.39302
#> 82 chr16 50725820 rs5743292 T A 1.09294e-14 1.585560 0.03425
#> 83 chr16 50725820 rs5743292 T A 1.09294e-14 1.585560 0.03425
#> 84 chr16 50727523 rs8061960 C T 1.17834e-04 0.898637 0.39789
#> 85 chr16 50727523 rs8061960 C T 1.17834e-04 0.898637 0.39789
#> 86 chr16 50729867 rs2066847 G GC 7.36933e-24 2.142320 0.01588
#> 87 chr16 50729867 rs2066847 G GC 7.36933e-24 2.142320 0.01588
#> 88 chr16 50730925 rs2357791 G A 3.28541e-05 0.889765 0.38091
#> 89 chr16 50730925 rs2357791 G A 3.28541e-05 0.889765 0.38091
#> 90 chr16 50732216 rs3135499 A C 8.33704e-06 0.883837 0.40962
#> 91 chr16 50732216 rs3135499 A C 8.33704e-06 0.883837 0.40962
#> 92 chr16 50732975 rs3135500 G A 5.35117e-06 0.880675 0.39709
#> 93 chr16 50732975 rs3135500 G A 5.35117e-06 0.880675 0.39709
#> 94 chr16 50733736 rs8056611 A G 3.06573e-04 0.907128 0.50553
#> 95 chr16 50733736 rs8056611 A G 3.06573e-04 0.907128 0.50553
#> 96 chr16 50734311 rs2357792 A G 5.95341e-04 0.911784 0.51925
#> 97 chr16 50734311 rs2357792 A G 5.95341e-04 0.911784 0.51925
#> 98 chr16 50735351 rs7205423 C G 9.77490e-04 0.915371 0.53108
#> 99 chr16 50735351 rs7205423 C G 9.77490e-04 0.915371 0.53108
#> 100 chr16 50735652 rs718226 A G 1.45649e-04 0.901090 0.41444
#> 101 chr16 50735652 rs718226 A G 1.45649e-04 0.901090 0.41444
#> 102 chr16 50741834 rs751919 T G 2.19091e-04 0.903676 0.41082
#> 103 chr16 50741834 rs751919 T G 2.19091e-04 0.903676 0.41082
#> 104 chr16 50741834 rs751919 T G 2.19091e-04 0.903676 0.41082
#> 105 chr16 50745428 rs1548990 T C 1.28810e-04 0.902741 0.51627
#> 106 chr16 50745428 rs1548990 T C 1.28810e-04 0.902741 0.51627
#> 107 chr16 50745428 rs1548990 T C 1.28810e-04 0.902741 0.51627
#> 108 chr16 50746641 rs9940175 C T 1.60859e-04 0.900960 0.39562
#> 109 chr16 50746641 rs9940175 C T 1.60859e-04 0.900960 0.39562
#> 110 chr16 50746641 rs9940175 C T 1.60859e-04 0.900960 0.39562
#> 111 chr16 50747891 rs8060598 T C 1.39281e-04 0.900889 0.41064
#> 112 chr16 50752261 rs147180604 GACAAA G 2.47400e-04 0.903473 0.39550
#> 113 chr16 50753236 rs3785142 G A 2.01029e-04 0.905481 0.51428
#> 114 chr16 50753572 rs7342715 A G 1.49745e-04 0.903764 0.52869
#> 115 chr16 50755339 rs34552113 G C 2.54017e-04 0.904540 0.40830
#> 116 chr16 50756247 rs12324931 A C 4.39824e-12 1.468620 0.04335
#> 117 chr16 50756788 rs3135501 A G 1.32366e-04 0.903080 0.52888
#> 118 chr16 50757339 rs3135503 T G 2.37112e-04 0.904215 0.40796
#> 119 chr16 50757543 rs34683241 A AT 4.12225e-04 0.907373 0.40419
#> 120 chr16 50758357 rs4785450 C T 1.52681e-04 0.900614 0.39567
#> 121 chr16 50761610 rs34464167 T A 2.56073e-04 0.907051 0.52689
#> 122 chr16 50765018 rs2066851 A G 1.53099e-04 0.901419 0.41082
#> 123 chr16 50766736 rs9925070 T G 4.31606e-04 0.908085 0.40613
#> 124 chr16 50767466 rs3064635 A AT 3.88371e-04 0.903345 0.39994
#> 125 chr16 50770376 rs8053457 A G 1.72508e-04 0.904619 0.52863
#> 126 chr16 50770520 rs6500329 G A 1.90299e-04 0.902816 0.41182
#> 127 chr16 50771058 rs200527746 TCTC T 4.92930e-07 1.524820 0.01755
#> 128 chr16 50773868 rs1420872 C T 2.23816e-04 0.903543 0.40889
#> 129 chr16 50774391 rs4785451 G A 1.41361e-04 0.902812 0.51887
#> 130 chr16 50782749 rs17314341 C T 2.64552e-04 0.904710 0.40949
#> 131 chr16 50782749 rs17314341 C T 2.64552e-04 0.904710 0.40949
#> 132 chr16 50783133 rs3785140 C T 2.62262e-04 0.904621 0.40965
#> 133 chr16 50783133 rs3785140 C T 2.62262e-04 0.904621 0.40965
#> 134 chr16 50783308 rs9938976 A G 4.05501e-04 0.907546 0.40742
#> 135 chr16 50783308 rs9938976 A G 4.05501e-04 0.907546 0.40742
#> 136 chr16 50783638 rs8061821 A C 1.25165e-04 0.899955 0.41297
#> 137 chr16 50783638 rs8061821 A C 1.25165e-04 0.899955 0.41297
#> 138 chr16 50784021 rs8062540 A G 1.25676e-04 0.899957 0.41293
#> 139 chr16 50784021 rs8062540 A G 1.25676e-04 0.899957 0.41293
#> 140 chr16 50786167 rs17314544 C T 1.86025e-04 0.902329 0.41086
#> 141 chr16 50786167 rs17314544 C T 1.86025e-04 0.902329 0.41086
#> 142 chr16 50786352 rs17223195 A G 2.02727e-04 0.902912 0.41144
#> 143 chr16 50786352 rs17223195 A G 2.02727e-04 0.902912 0.41144
#> 144 chr16 50786495 rs13337656 C T 2.11097e-04 0.903129 0.41130
#> 145 chr16 50786495 rs13337656 C T 2.11097e-04 0.903129 0.41130
#> 146 chr16 50786522 rs57664295 G GGCCGAGGT 3.51626e-04 0.905562 0.40642
#> 147 chr16 50786522 rs57664295 G GGCCGAGGT 3.51626e-04 0.905562 0.40642
#> 148 chr16 50793898 rs7194167 T C 1.18888e-06 1.526230 0.01617
#> 149 chr16 50793898 rs7194167 T C 1.18888e-06 1.526230 0.01617
#> 150 chr16 50795942 rs2160683 A T 5.29620e-04 0.909446 0.41000
#> 151 chr16 50795942 rs2160683 A T 5.29620e-04 0.909446 0.41000
#> 152 chr16 50807573 rs1054987 G A 4.12024e-04 0.907763 0.41762
#> 153 chr16 50807573 rs1054987 G A 4.12024e-04 0.907763 0.41762
#> 154 chr16 50807884 rs9635531 C T 7.75911e-04 0.911478 0.40667
#> 155 chr16 50807884 rs9635531 C T 7.75911e-04 0.911478 0.40667
#> 156 chr16 50808150 rs11374168 C CA 2.96528e-04 0.906213 0.43467
#> 157 chr16 50808150 rs11374168 C CA 2.96528e-04 0.906213 0.43467
#> 158 chr16 50808602 rs4785454 T A 5.24705e-04 0.909156 0.41720
#> 159 chr16 50808756 rs4785455 G A 5.30835e-04 0.909213 0.41714
#> 160 chr16 50808898 rs398029326 CAAAAAA C 1.26678e-04 0.900266 0.56746
#> 161 chr16 50809050 rs13332720 A G 4.14194e-04 0.907474 0.41723
#> 162 chr16 50815062 rs12922698 C T 1.49365e-06 0.846676 0.21017
#> 163 chr16 50816225 rs7200038 T G 2.44828e-04 0.857351 0.13179
#> 164 chr16 50816471 rs12932778 T C 8.86300e-05 0.849376 0.13431
#> 165 chr16 50817415 rs12932365 G A 7.74248e-04 0.867370 0.12828
#> 166 chr16 50833006 rs72798422 T C 2.85310e-06 1.363100 0.03197