simulateSample: Add random near-cis peaks to a simulated 4C-seq sample

In walter-ca/Basic4CSim: Basic4CSim: Simulation of 4C-seq data

Description

This function is a wrapper function that creates a simple simulated 4C-seq sample with a default background, some random noise, and near-cis peak regions.

Usage

simulateSample(simFragLibPath, vpChr, vpStart, firstCutter, 
numberRandom = 3, writeTo = "simulatedSample", printControls = FALSE)

Arguments

simFragLibPath	path for a corresponding virtual simulated fragment library containing fragment end sequences
vpChr	viewpoint chromosome
vpStart	viewpoint position
firstCutter	first restriction enzyme sequence
numberRandom	number of randomly simulated near-cis peaks
writeTo	name for the simulated 4C-seq sample's fastq file
printControls	if TRUE, print control graphics for background and near-cis read distribution

Value

An exported fastq file for a basic simulated 4C-seq sample

Author(s)

Carolin Walter

Examples

    if(interactive()) {
        simulateSample()
    }

walter-ca/Basic4CSim documentation built on May 28, 2019, 12:34 a.m.