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]