Functions in DESeq2?

Question

[Parham]

Can somebody explain what does following functions mean? They are from DESeq2.

1. rep
2. grp=factor()
3. colData

4. design= ~grp

   grp.idx <- rep(c("knockdown", "control"), each=4) coldat=DataFrame(grp=factor(grp.idx)) dds <- DESeqDataSetFromMatrix(cnts, colData=coldat, design = ~ grp)

Thanks!

Answer 1

[Devon Ryan]

This has nothing to do with DESeq2, as these are basic R functions (aside from the 3rd one). From within R, type:

1. help(rep)
2. help(factor)
3. help(SummarizedExperiment)
4. help("~")