CREAM {CREAM}

CREAM is the main function for CORE identification

Description

CREAM is the main function for CORE identification

Usage

CREAM(in_path, WScutoff = 1.5, MinLength = 1000, peakNumMin = 2)

Arguments

in_path

Path to the input file (The file inclusing the functional regions) Note. You have to make sure that there is no overlapping regions within the input file

WScutoff

Threshold used to identify WS within distribution of maximum distance between peaks for each order of CORE

MinLength

Criteria for the minimum number of functional regions in the input file

peakNumMin

Minimum number of peaks for CORE identification

Value

Bed file including the identified COREs

Examples

CREAM(system.file("extdata", "A549_Chr21.bed", package = "CREAM"),
MinLength = 1000, peakNumMin = 2)