rnb.execute.diffVar {RnBeads} | R Documentation |
This routine computes sites that are differentially variable between two sample groups specified as the column name in the phenotypic table.
rnb.execute.diffVar( rnb.set, pheno.cols = rnb.getOption("differential.comparison.columns"), region.types = rnb.region.types.for.analysis(rnb.set), columns.adj = rnb.getOption("covariate.adjustment.columns"), adjust.celltype = rnb.getOption("differential.adjustment.celltype"), disk.dump = rnb.getOption("disk.dump.big.matrices"), disk.dump.dir = tempfile(pattern = "diffMethTables_") )
rnb.set |
Object of type |
pheno.cols |
Column names used to define the classes, whose methylation variability should be compared with each other |
region.types |
Regions types to be used for the analysis. Defaults to the results given by rnb.region.types.for.analysis of the given RnBSet. |
columns.adj |
Column names or indices in the table of phenotypic information to be used for confounder adjustment in the differential variability analysis. |
adjust.celltype |
Flag indicating whether the resulting table should also contain estimated celltype contributions. See |
disk.dump |
Flag indicating whether the resulting differential methylation object should be file backed, ie.e the matrices dumped to disk |
disk.dump.dir |
disk location for file backing of the resulting differential methylation object. Only meaningful if |
Object of type RnBDiffMeth
containing information about the differential variability analysis.
Michael Scherer