variableCorrelHeatmap: Variable correleation heatmap

In jameslhao/dbgapr_dev: A dbGaP Phenotype Data Organizer

Description

The method draws the correlation graphs between different categories of a categorical variable. The resulting graph is saved as PDF and PNG files.

Usage

variableCorrelHeatmap(object, catPhvAcc, ...)

## S4 method for signature 'Study,character'
variableCorrelHeatmap(object, catPhvAcc = "", ...,
  numPhvAccList = vector(), saveToDir = "", showPlot = T)

Arguments

object	Study class object.
catPhvAcc	a character string. The dbGaP accession of a categorical variable.
...	There are optional arguments.
numPhvAccList	a character vector. A list of the dbGaP accessions of numeric variables.
saveToDir	a character string. (optional) The path to the directory where the plot PDF file is saved. If not provided, the file is saved in the 'temp' directory under the user project directory.
showPlot	a logical value. (optional) If TRUE (default), shows the created graph; Not show if FALSE.

Value

a data frame. The data used for plotting.

Methods (by class)

• object = Study,catPhvAcc = character: of class Study

Examples

## Not run: 

s <- Study(phsAcc = 'phs000001.v3.p1')
catAcc = 'phv00000031.v2'
numAccList = c('phv00000007.v2', 'phv00053794.v2', 'phv00053786.v2', 'phv00000106.v2') 
variableCorrelHeatmap(s, catPhvAcc = catAcc, numPhvAccList = numAccLlist, showPlot=T)

## End(Not run) 

jameslhao/dbgapr_dev documentation built on May 8, 2019, 11:03 p.m.