[R] DESeq

[R. Michael Weylandt]

This is one of those quirky R moments, try something like
as.integer(as.character(DATA)).

Michael

On Mon, Nov 7, 2011 at 4:24 PM, Eric <v_candida at hotmail.com> wrote:
> Hello,
>
> I have RNAseq data, which I am trying to analyze with DESeq. My file (tab delimited .txt) appears to be correct:
>
>>head(myfile)
>        VZ_w13 VZ_w14a VZ_w14b VZ_w15a VZ_w15b VZ_w16a
>        ENSG00000253101      0       0       0       0       0       0
>        ENSG00000223972      0       0       0       0       0       0...
>
> However, when I try to analyze the data with
>
>>cds <- newCountDataSet(myfile,conds)
>
> I get the following message:
>
> "Error in newCountDataSet(myfile,conds) : The countData is not integer.
>
> The problem, as far as I can tell, is that my data are numerical, not integer, because when I run
>
>>str(myfile)
>        'data.frame':   53433 obs. of  14 variables:
>         $ VZ_w13   : num  0 0 0 0 8 0 0 0 0 0 ...
>
> Does anyone have a way to convert my file from numerical to integer? As you can see, the data are in fact integers are already, so I'm a bit confused.
>
> Thanks,
> Eric
>
>
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