Hi,

I have some filtered CpG sites with chromosome, gene, loc, start, and end positions. I want to annotate it with respect to the reference genome and visualise it. I tried 'annotateR' package but it didn't help.

Here is a sample of the file.

SiteID  Chr Loc Gene    Island
0   cg16318112  1   969254  AGRN    chr1:967966-970238
1   cg09248054  1   969257  AGRN    chr1:967966-970238
2   cg00813378  1   1475209 C1orf70 chr1:1474962-1475220
3   cg16306898  1   1475675 C1orf70 chr1:1476093-1476669
4   cg16601494  1   1475737 C1orf70 chr1:1476093-1476669
... ... ... ... ... ...
2436    cg12821278  9   122131895   DBC1    chr9:122131086-122132214
2437    cg03625109  9   122132103   DBC1    chr9:122131086-122132214
2438    cg25935911  9   122132261   DBC1    chr9:122131086-122132214
2439    cg26756625  9   126779875   LHX2    chr9:126773246-126780953
2440    cg13726887  9   133541653   PRDM12  chr9:133534534-133542394