callXXorXY.numeric: Calls XX or XY from ChrX allele B fractions of a normal...

In aroma.cn: Copy-Number Analysis of Large Microarray Data Sets

Calls XX or XY from ChrX allele B fractions of a normal sample

Description

Calls XX or XY from ChrX allele B fractions of a normal sample.

Usage

## S3 method for class 'numeric'
callXXorXY(betaX, betaY=NULL, flavor=c("density"), adjust=1.5, ...,
  censorAt=c(-0.5, +1.5), verbose=FALSE)

Arguments

betaX	A numeric vector containing ChrX allele B fractions.
betaY	A optional numeric vector containing ChrY allele B fractions.
flavor	A character string specifying the type of algorithm used.
adjust	A postive double specifying the amount smoothing for the empirical density estimator.
...	Additional arguments passed to findPeaksAndValleys.
censorAt	A double vector of length two specifying the range for which values are considered finite. Values below (above) this range are treated as -Inf (+Inf).
verbose	A logical or a Verbose object.

Value

Returns a ...

Missing and non-finite values

Missing and non-finite values are dropped before trying to call XX or XY.

Author(s)

Henrik Bengtsson, Pierre Neuvial

See Also

Internally findPeaksAndValleys is used to identify the thresholds.

aroma.cn documentation built on July 21, 2022, 1:05 a.m.