methClone: A wrapper function for methclone package

In xiaowenchenjax/epihet: Determining Epigenetic Heterogeneity from Bisulfite Sequencing Data

Description

Runs methclone package on the provided two BAM files file

Usage

methClone(file1, file2, outfile, sampleid, distance = 72, coverage = 60,
  methdiff = 0)

Arguments

file1	File name for the first input of methclone package
file2	File name for the second input of methclone package
outfile	Output file name where methclone writes its output. This is a gzipped file
sampleid	Name of the sample provided to methClone package
distance	Maximum distance between first and forth methylation sites to be considered in a single pattern
coverage	Minimum coverage at a signle methylation site to be considered
methdiff	Threshold for difference in methylation between the two different samples

Value

Does not return any output, it writes methcone output into the provided outfile name

xiaowenchenjax/epihet documentation built on May 5, 2019, 9:20 a.m.