matLog2: log2-scale transform a dense OR sparse matrix
In zgyaru/testSctpa: A portable toolkit for pathway activity score calculation

This avoids the creation of a dense intermediate matrix when operating on sparse matrices

1	matLog2(spmat, scale = FALSE, scaleFactor = 1e+06)

`spmat`	sparse Matrix
`scale`	boolean - whether or not to scale the columns to sum to 'scale_factor'
`scaleFactor`	if scale = TRUE, columns are scaled to sum to this number

Either performs result <- log2(spmat+1) or if scale = TRUE returns result <- log2(spmat/colSums(spmat)*scaleFactor + 1)

logmat sparse Matrix

zgyaru/testSctpa documentation built on Dec. 23, 2021, 9:17 p.m.

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