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

In HenrikBengtsson/PSCBS: Analysis of Parent-Specific DNA Copy Numbers

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 class 'PairedPSCBS'
estimateDeltaCN(fit, scale=1, flavor=c("1-kappa", "delta(mode)"),
  kappa=estimateKappa(fit), adjust=0.2, quantile=0.95, ...)

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.

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),

Value

Returns a positive scalar numeric.

Author(s)

Henrik Bengtsson

See Also

For more information see PairedPSCBS.

HenrikBengtsson/PSCBS documentation built on Feb. 20, 2024, 9:01 p.m.