[BioC] Quantile normalization of MiRNA array data

[Henrik Bengtsson]

This was asked on the list the other day/week.

normalize.quantiles() is now in 'preprocessCore'.

/Henrik

On Tue, Nov 11, 2008 at 2:45 PM, Matthew Neville
<matthew.neville at oxlip.ox.ac.uk> wrote:
> HI,
>
> I am trying to quantile normalize my Agilent MiRNA array data.
>
> I have been following some instructions that should have worked:
>
> i have performed > read.table(), then corrected my data for Negative values
> then >Log2() transformed.
>
> My instructions were to then load the (affy) package then do:
>
>> normalize.quantiles(as.matrix(log2_file_name))
>
> but there does not seem to be a normalize.quantiles() function.
>
> I am running R 2.8.0 with affy_1.20.0.  Was this function from a previous
> version of affy or am i doing something stupid
>
> regards
>
> Matt (doesn't really know what he is doing) Nev
>
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