DNAcopy-internal {DNAcopy}R Documentation

Internal DNAcopy functions

Description

Internal functions of package DNAcopy.

Usage

changepoints(genomdat, data.type = "logratio", alpha = 0.01, nperm
                 = 10000, window.size = NULL, overlap = 0.25, trim =
                 0.025, smooth.outliers = TRUE, smooth.region = 2,
                 outlier.SD = 4, smooth.SD = 2, smooth.output = FALSE,
                 undo.splits = "none", undo.prune = 0.05, undo.SD = 3,
                 verbose = TRUE)
changepoints.prune(genomdat, lseg, change.cutoff=0.05)
changepoints.sdundo(genomdat, lseg, change.SD=3, trim=0.025)
smooth.data(genomdat, smooth.region = 2, outlier.SD = 4,
                 smooth.SD = 2, trim = 0.025)
trimmed.variance(genomdat, trim=0.025)
inflfact(trim)

Details

These are not to be called directly by the user


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