buildAgilent:

In brian-bot/rCGH: aCGH-based genomic profiling

Usage

buildAgilent(filePath, Ref = "cy3", sampleName = NA, labName = NA, supFlags = TRUE)

Arguments

filePath
Ref
sampleName
labName
supFlags

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (filePath, Ref = "cy3", sampleName = NA, labName = NA, 
    supFlags = TRUE) 
{
    fileName <- gsub("(.*)/", "", filePath)
    object <- new("cghObj", info = c(fileName = fileName, sampleName = sampleName, 
        labName = labName, platform = "Agilent"))
    object@info <- c(object@info, .readAgilentInfo(filePath))
    object@cnSet <- .readAgilentMatrix(filePath)
    if (supFlags) 
        object <- .suppressFlags(object)
    object <- .suppressDuplic(object)
    object <- .preset(object)
    return(object)
  }

brian-bot/rCGH documentation built on May 13, 2019, 5:11 a.m.