[BioC] using the Limma package with matrix data

[Mark Robinson]

Markus.

I encourage you to read the limma documentation.  'lmFit', which is  
the command you'll use to fit the linear model, will take several  
class types as input, including a matrix.

In fact, if you look at:

?lmFit

... you'll see that some of the code examples at the bottom operate  
on a matrix of randomly generated numbers for illustration.

Hope that helps.
Mark




On 26/06/2008, at 12:38 PM, Markus Seto wrote:

> Hi,
>
> I'm new to R, and i want to use the R software package Limma to  
> compute some
> tests for differential gene expression.  However, my data is in a
> matrix-style format (with the Huber variance stabilization transform
> applied), where columns are samples, and rows are genes - what  
> would the
> easiest way to use this package be?  The R interface seems to only  
> work well
> when the data is available in GPR format?
>
> Thanks for any help you can provide,
>
> Markus
>
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