RNA-seq biological replicates for DGE · Biostar

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RNA-seq biological replicates for DGE

I would like to know how you treat biological replicates for differential gene expression? So far, they have similar QC after trimming adapters and so I proceeded with alignment to reference genome, Now after the alignment I am not clear how to treat these biological replicates in the Differential gene expression.

rna-seq dge

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updated 8.9 years ago by Devon Ryan 10K • | written 8.9 years ago by amy16 4

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The standard process is to determine per gene counts in each sample (e.g., with featureCounts) and load all of those into R (e.g., using DESeq2, edgeR, or limma/voom). You will not merge your replicates.

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written 8.9 years ago by Devon Ryan 10K

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