normalizeDESeq: DESeq median ratio normalization for matrix
In alpine: alpine

Simple implementation of DESeq median ratio normalization

1	normalizeDESeq(mat, cutoff)

`mat`	a matrix of numeric values
`cutoff`	a numeric value to be used as the cutoff for the row means of `mat`. Only rows with row mean larger than `cutoff` are used for calculating the size factors

a matrix with the median ratio size factors divided out

Anders, S. and Huber, W., Differential expression analysis for sequence count data. Genome Biology (2010) doi: 10.1186/gb-2010-11-10-r106

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x <- runif(50,1,100)
mat <- cbind(x, 2*x, 3*x)
norm.mat <- normalizeDESeq(mat, 5)

alpine documentation built on Nov. 8, 2020, 7:25 p.m.

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