BootCL.Pvalue {BootCL}R Documentation

Calculate the P-value

Description

Calculate the P-value to test statistical significance of chromosomal clustering in differentially expressed genes defined from a microarray experiment.

Usage

BootCL.Pvalue(Bstat,distribution)

Arguments

Bstat object from BootCL.Statistic function
distribution Bootstrap distribution from BootCL.distribution function

Value

Diff.count statistic to test statistical significance of chromosomal clustering
Pvalue p-value
dist Bootstrap distribution
windowsize window size
sampling.count the number of genes in the cluster
Affy.ID Affymetrix ID
Access.ID Accesssion ID

...

Examples

     library(BootCL)
     chip.name<-"HG.U133A"
     data(affy.hgu133a)
     sample.cluster<-affy.hgu133a[sample(1:1000,100),1]
     sample.ID<-find.ID(chip.name,sample.cluster) 
     Boot.Stat<-BootCL.Statistic(chip.name,sample.ID)
     Bdist<-BootCL.distribution(chip.name,Boot.Stat$sampling.count,total.sampling.count=10000)
     BootP<-BootCL.Pvalue(Boot.Stat,Bdist)
     BootCL.plot(BootP)

[Package BootCL version 1.7 Index]