methylKit (version 0.9.5)

tileMethylCounts: Get methylated/unmethylated base counts for tilling windows

Description

The function summarizes methylated/unmethylated base counts over tilling windows accross genome. This function can be used when differential methylated analysis is preferable to tilling windows instead of base pairs.

Usage

tileMethylCounts(object,win.size=1000,step.size=1000,cov.bases=0)

Arguments

object

methylRaw, methylRawList or methylBase object containing base pair resolution methylation information

win.size

an integer for the size of the tiling windows

step.size

an integer for the step size of tiling windows

cov.bases

minimum number of bases to be covered in a given window

Value

methylRaw,methylBase or methylRawList object

Examples

# NOT RUN {
data(methylKit)

tiled.methylRaw=tileMethylCounts(object=methylRawList.obj,win.size=1000,
                                 step.size=1000,cov.bases=0)
# }