[BioC] positively correlated genes
Gordon K Smyth
smyth at wehi.EDU.AU
Wed Sep 10 03:08:28 CEST 2014
If you are using edgeR's glmFit function or limma's voom and lmFit
functions, you can simply add the log-expression values of the gene of
interest as a column of the design matrix. Then a standard DE analysis
will detect any other genes that are significantly correlated with the
gene of interest.
Gordon
> Date: Tue, 9 Sep 2014 01:41:14 -0700 (PDT)
> From: "karthik [guest]" <guest at bioconductor.org>
> To: bioconductor at r-project.org, deepaksrna at gmail.com
> Subject: [BioC] positively correlated genes
>
> hi
> I am interested to find out the genes that are positively and
> negatively correlated genes with my genes of interest. (using rnaseq
> normalized expression data). Can some one suggest me a better option.
>
> Thank you
>
> -- output of sessionInfo():
>
> sessionInfo()
> R version 3.0.2 (2013-09-25)
> Platform: x86_64-w64-mingw32/x64 (64-bit)
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