[R] heatmap with RNA-Seq data

David Winsemius dwinsemius at comcast.net
Mon Jul 18 21:50:24 CEST 2011

On Jul 18, 2011, at 3:34 PM, rebioman wrote:

> Hi all,
> new to this forum
> I'm try to using R to draw a heatmap of my RNA-seq data
> before doing that I did a log2 transformation of my data and produce  
> a lot
> -inf in the matrix
> when I try to use the heatmap function, it seems can not deal with  
> the -inf
> so I was wondering how to deal with these gene with 0rpkm(they are  
> not 0 in
> all samples, so I want to keep them in the heatmap)
> thanks


Could be used to replace infinities with a suitably low number, which  
can only be determined from the data context.

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David Winsemius, MD
West Hartford, CT

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