methylRawListDB-class {methylKit} | R Documentation |
This class stores the list of methylRawDB
objects.
Functions such as lapply
can be used on this list. It extends
list
class. This object is primarily produced
by methRead
function.
methylRawListDB(..., treatment)
treatment
numeric vector denoting control and test samples
.Data
a list of methylRawDB
objects
methylRawListDB(...)
combine multiple methylRawDB objects supplied in ... into a methylRawListDB object.
file.list=list( system.file("extdata", "test1.myCpG.txt", package = "methylKit"), system.file("extdata", "test2.myCpG.txt", package = "methylKit"), system.file("extdata", "control1.myCpG.txt", package = "methylKit"), system.file("extdata", "control2.myCpG.txt", package = "methylKit") ) methylRawListDB.obj <- methRead(file.list, sample.id = list("test1","test2","ctrl1","ctrl2"), assembly = "hg18",treatment = c(1,1,0,0), dbtype = "tabix",dbdir = "methylDB") #applying functions designed for methylRawDB on methylRawListDB object lapply(methylRawListDB.obj,"getAssembly") # remove Database again rm(methylRawListDB.obj) unlink("methylDB",recursive=TRUE)