readSample: Read Sample

In Chicago: CHiCAGO: Capture Hi-C Analysis of Genomic Organization

Description

This function reads input data from a file, into a chicagoData object.

Usage

readSample(file, cd)

Arguments

file	The location of an input file FIXME more details!
cd	A chicagoData object.

Value

An object of class chicagoData.

Warning

The object intData(x) is updated by reference. Thus, intData(cd) will be altered. See vignette for further information.

Author(s)

Mikhail Spivakov, Jonathan Cairns, Paula Freire Pritchett

Examples

filesDir <- file.path(system.file("extdata", package="Chicago"), "unitTestData")
file <- file.path(filesDir, dir(filesDir))[1]
print(file) ##we will read in this file

designDir <- file.path(system.file("extdata", package="Chicago"), "unitTestDesign")

cd <- setExperiment(designDir=designDir)
cd <- readAndMerge(file, cd)

Chicago documentation built on Nov. 8, 2020, 8:15 p.m.