subsetByLoci {minfi} | R Documentation |
Subset an RGChannelSet by CpG loci.
subsetByLoci(rgSet, includeLoci = NULL, excludeLoci = NULL, keepControls = TRUE, keepSnps = TRUE)
rgSet |
An object of class |
includeLoci |
A character vector of CpG identifiers which should be kept. |
excludeLoci |
A character vector of CpG identifiers which should be excluded. |
keepControls |
Should control probes be kept? |
keepSnps |
Should SNP probes be kept? |
This task is non-trivial because an RGChannelSet
is indexed by
probe position on the array, not by loci name.
An object of class RGChannelSet
, which some probes removed.
if(require(minfiData)) { loci <- c("cg00050873", "cg00212031", "cg00213748", "cg00214611") subsetByLoci(RGsetEx.sub, includeLoci = loci) subsetByLoci(RGsetEx.sub, excludeLoci = loci) }