aroma.cn (version 1.6.1)

testAllelicBalanceByBAFs: Tests for allelic balance in a genomic region

Description

Tests for allelic balance in a genomic region.

Usage

# S3 method for default
testAllelicBalanceByBAFs(betaT, muN, flavor=c("var", "mean"), ..., verbose=FALSE)

Value

A list of class "htest".

Arguments

betaT

A numeric vector of J tumor allele B fractions (BAFs).

muN

A numeric vector of J normal (germline) genotypes.

flavor

A character specifying the type of test to be performed.

...

Not used.

verbose

See Verbose.

Author

Henrik Bengtsson, Pierre Neuvial

Examples

if (Sys.getenv("_R_CHECK_FULL_") != "" && require("PSCBS")) {

# Load example ASCN data
data <- PSCBS::exampleData("paired.chr01");

# PSCBS segmentation
fit <- segmentByPairedPSCBS(data, verbose=-10);

# Normalize
fitN <- normalizeBAFsByRegions(fit, verbose=-10);

fitN2 <- callAllelicBalanceByBAFs(fitN, verbose=-10);
print(fitN2);

} # if (require("PSCBS"))