Description Usage Arguments Value Author(s)
Implement limma with voom and apply the empirical Bayes method in limma. This is a modified version of voom which allows to specify pseudocount and pseudo library size. Hence, voom: y <- t(log2(t(counts + pseudocount)/(lib.size + pseudo_libsizes) * 1e+06)).
1 2 | voom.controlPseudocount(counts, design, pseudocount = 0.5,
pseudo_libsizes = 1, span = 0.5)
|
counts |
gene by sample expression count matrix. |
design |
design matrix, generated by R function model.matrix() |
pseudocount |
default .5 |
pseudo_libsizes |
default 1. |
w
Weights of dimension G by N.
Chiaowen Joyce Hsiao
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