Description Usage Arguments Value Author(s)
Analysis of differentially methylated positions (DMPs) and detection of differentially methylated regions (DMRs).
1 2 | differentialMethylation(M, targets, array.annot.gr, betas = ilogit2(M),
interest.vars = NULL, outdir = getwd(), ncores = 1, invisible = T)
|
M |
matrix with M values |
targets |
data frame with sample annotation to be used to run limma |
array.annot.gr |
GRanges object with array annotation |
betas |
matrix with Beta values |
interest.vars |
character vector with variables of interest, excluding the confounding factors |
outdir |
path to save results |
ncores |
integer. Number of cores to use to parallellize the DMR analysis |
invisible |
a boolean to determine if the output of 'missMethyl::gometh' is returned |
limma::eBayes
Xavier Pastor x.pastorhostench@dkfz.de
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