SGOL-class {cghMCR} | R Documentation |
Segments of gains or losses along chromosomes can be calculated based on segmentation data derived from the segment function of the DNAcopy package
Objects can be created by calls of the form new("SGOL", ...)
or
using a constructor SGOL.
gol
:Object of class "matrix"
holding the gain
or loss data for chromosomal segments
threshold
:Object of class "vector"
of length 2
indicating the lower and upper thresholds below/over which data
points will be included in the calculation of SGOL score using the
method defined by method
method
:Object of class "function"
giving the
method used to calculate SGOL scores. Common methods include sum,
median, and mean
signature(object = "SGOL")
: extracts SGOL scores
signature(object = "SGOL")
: gets the name of
the function used to calculate the SGOL scores
signature(x = "SGOL", y = "ANY",...)
: plots the data
signature(object = "SGOL")
: gets the
thredhold used for the calculation
Jianhua Zhang
The SGOL score is a modified version of the GISTIC score published in PNAS 104: 20007-20012
showClass("SGOL") require(CNTools)