select {methylKit} | R Documentation |
The function returns a subset of data contained in the methylKit
objects.
select(x,i) ## S4 method for signature 'methylBase' select(x, i) ## S4 method for signature 'methylRaw' select(x, i) ## S4 method for signature 'methylDiff' select(x, i) ## S4 method for signature 'methylRawDB' select(x, i) ## S4 method for signature 'methylBaseDB' select(x, i) ## S4 method for signature 'methylDiffDB' select(x, i)
x |
an |
i |
a numeric or logical vector. This vector corresponds to bases or
regions contained in |
a methylBase
,methylRaw
or
methylDiff
object depending on the input object.
data(methylKit) methylRawDB.obj=methRead( system.file("extdata","test1.txt.bgz",package="methylKit"), sample.id="test1", assembly="hg18", dbtype = "tabix",dbdir = "methylDB") methylBaseDB.obj=unite(methylRawList.obj,save.db=TRUE,dbdir="methylDB") # selects first hundred rows, returns a methylRaw object subset1=select(methylRawList.obj[[1]],1:100) subset1=select(methylRawDB.obj,1:100) # selects first hundred rows, returns a methylBase object subset2=select(methylBase.obj,1:100) subset2=select(methylBaseDB.obj,1:100) # selects first hundred rows, returns a methylDiff object subset3=select(methylDiff.obj,1:100) # remove Database again rm(methylBaseDB.obj) rm(methylRawDB.obj) unlink("methylDB",recursive=TRUE)