cytoSet-class {prada} | R Documentation |
This class is a container for a set of
cytoFrame
objects
## S4 method for signature 'cytoSet': phenoData(object) \S4method{phenoData<-}{cytoSet,ANY}(object,value) ## S4 method for signature 'cytoSet': pData(object) ## S4 method for signature 'cytoSet': colnames(object) \S4method{colnames<-}{cytoSet,ANY}(object,value) ## S4 method for signature 'cytoSet': show(object) \S4method{[}{cytoSet,ANY}(x, i) \S4method{[[}{cytoSet,ANY}(x, i)
object,x |
Objects of class cytoSet . |
value |
Replacement value. |
i |
Index. |
Objects can be created using the function
readCytoSet
or via
new('cytoSet,
frames = ...., # environment with cytoFrames
phenoData = .... # object of class phenoData
colnames = .... # object of class character
)
frames
:environment
containing one or more cytoFrame
objects.phenoData
:phenoData
. Each row
corresponds to one of the cytoFrames in the frames
slot.
It is mandatory that the pData has column named name
colnames
:character
object with the
(common) column names of all the data matrices in the cytoFrames.x
is cytoSet
, then x[i]
returns a cytoSet
object, and x[[i]]
a cytoFrame
object. The semantics is similar to the behavior of the subsetting
operators for lists.colnames
slot.phenoData
slot.Wolfgang Huber
cset<-readCytoSet(path=system.file("extdata", package="prada"), pattern="[A-Z][0-9][0-9]$") cset pData(cset) cset[[1]] cset[["fas Bcl2 plate323-04-04.A02"]] cset["fas Bcl2 plate323-04-04.A02"] cset[1:3] cset[[1]] <- exprs(cset[[1]])[1:100, ]