[BioC] CGHcall and Normalization
mtmorgan at fhcrc.org
Sat Jun 11 17:24:09 CEST 2011
On 06/08/2011 08:47 AM, Salih Tuna wrote:
> i am trying to use the normalization function from CGHcall library.
> The command i use is
> normal.fullData<- normalize(fullData, method = "median", cellularity =
> and i get the following error message. How can i solve this issue.
> Error in function (classes, fdef, mtable) :
> unable to find an inherited method for function "copynumber", for
> signature "data.frame"
Hi Salih --
and look at how normalize() is used, the first argument is 'raw.data'
and it is
if instead I
Applying median normalization ...
Error in function (classes, fdef, mtable) :
unable to find an inherited method for function "copynumber", for
so perhaps you are trying to use a data.frame instead of an object of
'cghRaw', i.e., your earlier work flow needs to be adjusted. If you need
more help, it is best to post a reproducible example, starting from
sample data available in the package.
Hope that helps,
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