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4 hours ago by

I am using MethylKit package for WGBS data. I have ran till before annotation successfully. Now in the annotation step I am getting this error

library(genomation)
annotate.WithGenicParts(myDiff25p, gene.obj)
Error in annotate.WithGenicParts(myDiff25p, gene.obj) :
unused arguments (myDiff25p, gene.obj)

I ran empty argument to figure out things and changed it, but till I got that below mentioned error? any clue, how to solve it?

annotate.WithGenicParts()
Use functions in genomation package from Bioconductor
Warning message:
'annotate.WithGenicParts' is deprecated.
Use 'genomation::annotateWithGeneParts' instead.
See help("Deprecated")

annotateWithGeneParts(myDiff25p, gene.obj)
Error in (function (classes, fdef, mtable) :
unable to find an inherited method for function ‘annotateWithGeneParts’ for signature ‘"methylDiff", "CompressedGRangesList"’

Thanks
Shrinka



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