Pearsons chi-square statistic for comparing the probability binned datasets

Description

This function calculates the Pearsons chi-squared statistic for comparing data binned using the proBin and binByRef functions.Internally, the function utilizes the chisq.test function.

Usage

calcPearsonChi(ctrlRes,sampRes)

Arguments

Value

A list containing the statistic, p.value, observed, expected counts and the residuals

Author(s)

Nishant Gopalakrishnan

See Also

proBin, calcPBChiSquare

Examples

data(GvHD)
# flow frame 1 is treated as  control dataset and used to generate bins
resCtrl<-proBin(GvHD[[1]][,c("FSC-H","SSC-H","Time")],200)  
plotBins(resCtrl,GvHD[[1]],channels=c("FSC-H","SSC-H","Time"),title="Binned control data")
# Same bins are applied to flowFrame 16
resSample<-binByRef(resCtrl,GvHD[[16]][,c("FSC-H","SSC-H","Time")])
stat<-calcPearsonChi(resCtrl,resSample)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(flowStats)
Loading required package: flowCore
Loading required package: fda
Loading required package: splines
Loading required package: Matrix

Attaching package: 'Matrix'

The following object is masked from 'package:flowCore':

    %&%


Attaching package: 'fda'

The following object is masked from 'package:graphics':

    matplot

Loading required package: mvoutlier
Loading required package: sgeostat
sROC 0.1-2 loaded
Loading required package: cluster
Loading required package: flowWorkspace
Loading required package: flowViz
Loading required package: lattice
Loading required package: ncdfFlow
Loading required package: RcppArmadillo
Loading required package: BH
Loading required package: gridExtra
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/flowStats/calcPearsonChi.Rd_%03d_medium.png", width=480, height=480)
> ### Name: calcPearsonChi
> ### Title: Pearsons chi-square statistic for comparing the probability
> ###   binned datasets
> ### Aliases: calcPearsonChi
> ### Keywords: misc
> 
> ### ** Examples
> 
> 
> data(GvHD)
> # flow frame 1 is treated as  control dataset and used to generate bins
> resCtrl<-proBin(GvHD[[1]][,c("FSC-H","SSC-H","Time")],200)  
> plotBins(resCtrl,GvHD[[1]],channels=c("FSC-H","SSC-H","Time"),title="Binned control data")
> # Same bins are applied to flowFrame 16
> resSample<-binByRef(resCtrl,GvHD[[16]][,c("FSC-H","SSC-H","Time")])
> stat<-calcPearsonChi(resCtrl,resSample)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>