Estimate tail strength for a dataset, from a SAM analysis
Estimate tail strength for a dataset, from a SAM analysis
samr.tail.strength(samr.obj)
samr.obj |
Object returned by samr |
A list with components
ts |
Estimated tail strength. A number less than or equal to 1. Zero means all genes are null; 1 means all genes are differentially expressed. |
,
se.ts |
Estimated standard error of tail strength. |
Jun Li and Balasubrimanian Narasimhan and Robert Tibshirani
Taylor, J. and Tibshirani, R. (2005): A tail strength measure for assessing the overall significance in a dataset. Submitted.
#generate some example data
set.seed(100)
x<-matrix(rnorm(1000*20),ncol=20)
dd<-sample(1:1000,size=100)
u<-matrix(2*rnorm(100),ncol=10,nrow=100)
x[dd,11:20]<-x[dd,11:20]+u
y<-c(rep(1,10),rep(2,10))
data=list(x=x,y=y, geneid=as.character(1:nrow(x)),
genenames=paste("g",as.character(1:nrow(x)),sep=""), logged2=TRUE)
samr.obj<-samr(data, resp.type="Two class unpaired", nperms=100)
samr.tail.strength(samr.obj)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.