PSCBS (version 0.68.0)

estimateDeltaCN.PairedPSCBS: Estimates the length of one total copy-number (TCN) unit

Description

Estimates the length of one total copy-number (TCN) unit

Usage

# S3 method for PairedPSCBS
estimateDeltaCN(fit, scale=1, flavor=c("1-kappa", "delta(mode)"),
  kappa=estimateKappa(fit), adjust=0.2, quantile=0.95, ...)

Value

Returns a positive scalar numeric.

Arguments

scale

A numeric scale factor in (0,Inf) used for rescaling (multiplying) the final estimate with.

flavor

Specifies which type of estimator should be used.

kappa

Estimate of background signal (used by the "1-kappa" method).

adjust, quantile

Tuning parameters (used by the "delta(mode)" method).

...

Not used.

Author

Henrik Bengtsson

Details

For parent-specific copy-number (PSCN) data, the TCN unit length is estimated as \((1-kappa)/2\), where \(kappa\) is estimated from data (by estimateKappa).

For total copy-number (TCN) data (only),

See Also

For more information see PairedPSCBS.