[BioC] voom transformed data
Gokmen [guest]
guest at bioconductor.org
Sat Apr 12 16:35:49 CEST 2014
Dear all,
I am transforming my RNA-Seq count data using voom function of limma package. I need to get the transformed data using the log normalized data (voom.object$E) and the weight matrix (voom.object$weights). I am interested in applying multivariate analysis such as classification and clustering analysis, instead of differential expression. Thus, I want to ask if there is a way to get this transformed data, to work with this data outside limma package.
Thanks,
Gokmen
-- output of sessionInfo():
R version 3.0.3 (2014-03-06)
Platform: x86_64-apple-darwin10.8.0 (64-bit)
locale:
[1] C
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods base
other attached packages:
[1] edgeR_3.2.4 tweeDEseqCountData_1.0.9 BiocInstaller_1.10.4
[4] ReadqPCR_1.6.0 affy_1.38.1 limma_3.16.8
[7] Biobase_2.20.1 BiocGenerics_0.6.0
loaded via a namespace (and not attached):
[1] affyio_1.28.0 preprocessCore_1.22.0 tools_3.0.3
[4] zlibbioc_1.6.0
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