binary.X | R Documentation |
This function builds a binary alteration incidence matrix from copy number data. Anything not equal to base.ploidy is 1.
binary.X(X, bulk, base.ploidy = 2)
X |
a copy number matrix to convert to an incidence matrix |
bulk |
logical, if TRUE data is bulk DNA is cbioportal calls, default is FALSE for integer copy number |
base.ploidy |
expected ploidy, e.g. 2N = 2, 4N = 4 |
Returns an incidence matrix for X, when X != base.ploidy
data(cnr)
Z <- binary.X(cnr$X, bulk = cnr$bulk)
Z <- binary.X(cnr$genes[, c("CDK4", "MDM2")], bulk = cnr$bulk)
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