AllAccessors {rCGH} | R Documentation |
"rCGH"
Accessor Functions Methods for extracting information from an object of
class "rCGH"
.
Each of the below methods are simply convenience functions which extract the
corresponding slots (as the name of each method suggests) from an object of
class "rCGH"
.
## S4 method for signature 'rCGH' getInfo(object, item = NULL) ## S4 method for signature 'rCGH' getCNset(object) ## S4 method for signature 'rCGH' getParam(object) ## S4 method for signature 'rCGH' getSegTable(object, minLen = NULL)
object |
: An object of class |
item |
: character. Can be one, or a vector of items.
When |
minLen |
: numeric. The mininal length for a segment, in Kb.
When |
getInfo(object, item = NULL): character.
getCNset(object): a data frame.
getParam(object): a list of parameters.
getSegTable(object, minLen = NULL): a data frame.
"rCGH"
getInfo(object, item = NULL): returns the values of the specified items, all the information otherwise.
getCNset(object): returns the full by-probe dataset.
getParam(object): returns the analysis parameters.
getSegTable(object, minLen = NULL): returns the segmentation table - one row per segment.
Frederic Commo
filePath <- system.file("extdata", "Agilent4x180K.txt.bz2", package = "rCGH") cgh <- readAgilent(filePath, sampleName = "Agilent4x180K", labName = "myLab") # Getting all the information getInfo(cgh) # Getting specific items getInfo(cgh, c("sampleName", "labName"))