bootstrapTCNandDHByRegion.PairedPSCBS: Estimate confidence intervals of TCN and DH segment levels
In HenrikBengtsson/PSCBS: Analysis of Parent-Specific DNA Copy Numbers

bootstrapTCNandDHByRegion.PairedPSCBS

R Documentation

Estimate confidence intervals of TCN and DH segment levels

Description

Estimate confidence intervals of TCN and DH segment levels using bootstrap.

Usage

## S3 method for class 'PairedPSCBS'
bootstrapTCNandDHByRegion(fit, B=1000L, boot=NULL, ..., probs=c(0.025, 0.05, 0.95,
  0.975), statsFcn=NULL, what=c("segment", "changepoint"), force=FALSE, verbose=FALSE,
  .debug=FALSE)

Arguments

`B`	A positive `integer` specifying the number of bootstrap samples.
`boot`	Alternatively, to generating `B` bootstrap samples, this specifies a pre-generated set of bootstrap samples as returned by `bootstrapSegmentsAndChangepoints()`.
`...`	Additional arguments passed to `bootstrapSegmentsAndChangepoints()`.
`probs`	The default quantiles to be estimated.
`statsFcn`	A (optional) `function` that estimates confidence intervals given locus-level data. If `NULL`, the `quantile` function is used.
`what`	A `character` `vector` specifying what to bootstrap.
`force`	If `TRUE`, already existing estimates are ignored, otherwise not.
`verbose`	See `Verbose`.
`.debug`	(internal) If `TRUE`, additional sanity checks are performed internally.