sim.cnvData: simulated data of "PatCNVData" class with coverage and CNV...

In hshdndx/new-to-CNV: patternCNV: a versatile tool for detecting copy number changes from exome-seq data

Description

This is a simulated data of "PatCNVData" class with coverage and CNV information for testing purpose.

Usage

data(sim.cnvData)

Format

sim.cnvData of "PatCNVData" class

Details

The purpose of this dataset is to faciliate users to test examples quickly. If interested, this simulation dataset can be easily re-generated as follows:

#=== load a simulation example

config.filename <- "sim1.ini"

makeSimulation(config.filename)

#=== create patternCNV session

sim.session <- createSession(config.filename)

#=== compute CNV

sim.cnvData <- computeMultiCNV(sim.session)

Examples

#=== load simulated data with pre-computed coverage and CNV
data(sim.cnvData)

#=== list CNV log2ratio of exons of gene "SLC25A17" of samples "n2" and "n5"
cnvMatrix(sim.cnvData,c("n2","n5"),"SLC25A17")

hshdndx/new-to-CNV documentation built on May 17, 2019, 5:55 p.m.