[BioC] [Limma] Calculate the relation between mRNA and miRNA

[Belinda Phipson]

Hi Jack

I think you have misunderstood what lmFit does. lmFit takes the data
object/matrix, call it x, and fits a user-specified design matrix to it,
call it design. i.e.

> fit <- lmFit(x,design)

>From your message I don't understand what format your data is in. However,
if you have two vectors, and you wanted to calculate a correlation, you
could just use

> cor(vector1, vector2, use=complete.obs)

which would take care of the missing values.

Cheers,
Belinda



> Hi all,
>
> I have a problem to use lmFit calculated the correlation between mRNA and
> miRNA, because my miRNA data contained "NA" values.
>
> So if I use :lmFit(mRNA,miRNA), I got the message "Error in qr.default(x)
> :
> NA/NaN/Inf in foreign function call (arg 1)".
>
> The original "lm" function allow to included "NA", why lmFit can't?
>
> Thanks,
>
> Jack
>
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>
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