tileMethylCounts-methods: Get methylated/unmethylated base counts for tilling windows

In vd4mmind/methylkit: DNA methylation analysis from high-throughput bisulfite sequencing results

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

data(methylKit)

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

vd4mmind/methylkit documentation built on May 3, 2019, 4:57 p.m.