Normalisation of RNA-seq data for coexpression analysis
I've been wondering on what is the best, or most widely accepted, way to normalise RNA-seq data (either FastQ or feature counts) from multiple samples, in order to get a gene expression dataset that is best for global coexpression analysis.
I have tried using qsmooth and vst normalisation but I have not been satisfied with the results.
Pointings to any existing literature on this subject would be also much appreciated.
Thanks everyone in advance.
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