DESeq2 rlog-transformed RNA-seq data for machine learning input

DESeq2 rlog-transformed RNA-seq data for machine learning input

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I am interested in using rlog-transformed RNA-seq data for machine learning applications. One concern that I have is that rlog does not account for gene length.

Would it be unadvisable to scale rlog-transformed data by log-gene length?

A couple notes on my approach:

1) I am planning on using a frozen rlog transformation for my validation/test sets
2) Because of my deep learning architecture, I would prefer to account for gene length in preprocessing rather than downstream

Thank you for your time!


rlog


deeplearning


DESeq2


machinelearning

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