correlated_regions_per_gene: correlated regions in extended gene model

Description Usage Arguments Examples

View source: R/methylation_cr.R

Description

correlated regions in extended gene model

Usage

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correlated_regions_per_gene(site, meth, cov, expr, chr, cov_cutoff = 3, min_dp = 4,
    cor_method = "spearman", window_size = 5, factor = NULL, max_width = 10000)

Arguments

site

CpG sites

meth

methylation matrix corresponding to site

cov

coverage

expr

expression for current gene

chr

chromosome

cov_cutoff

cutoff for coverage

min_dp

minimal number of non-NA values for calculating correlations

cor_method

method for calcualting correlations

window_size

how many CpG sites in a window

factor

subtype

max_width

maximum width of a window

Examples

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# There is no example
NULL

jokergoo/cotools documentation built on May 18, 2017, 6:05 a.m.