xprnSet(phenoData, exprs, featureData, ...) XprnSet(phenoData, exprs, featureData, ...) xprnSetPair(x, y, factor.name, ...)
exprs(object)
pData(object)
pData(object) <- value
fData(object)
fData(object) <- value
featureNames(object)
annotation(object,...)
annotation(object,...) <- value
nplot(x,y,...)
median(x, na.rm = FALSE)
hist(x,...)
logb(x,base)
myzsim(alpha,N,n,stand,J)
myalpha(dat,samp,start,n,perm,sw)
mylocfdr(zz,p.value,nulltype, ...)
new.est.lfdr.pvalue(LFDR.hat,p0.hat,pvalue,method=NULL,info=list())
uniquex(x,y=NULL,vip=1)
list2est(x,n.object)
est2list(x)
get.args(fun,max.size=c(1,3),n=1,wn=-1,...)
data2statANDpvalue(x,y=NULL,fun=abs.t.test,paired=FALSE, opt=c('both','all','b','a','pvalue','p','stat','s'),...)
stat.toANDfrom.pvalue(stat=NULL,pvalue=NULL,cFUN,alternative="two.sided", sym.distrib=T,...)
get.other.from.testfun(x,y=NULL,fun=t.test,paired=FALSE,opt='parameter',...)
get.pvalues(x,y=NULL,fun=t.test,paired=FALSE,...)
get.stats(x,y=NULL,fun=t.test,paired=FALSE,...)
stat2pval(x,pFUN=pt,sym.distrib=T,alternative='two.sided',...)
pval2stat(x,qFUN=qt,alternative='two.sided',...)
MakeNames(x,nmvar=c('X','I'),...)
is.error(object)
assert.is(object, class2, text = "")
assert.are(object, class2, ...)
is.prob(P, tolerance = 1e-3, ...)
is.err(object)
estimated.LFDR(object, monotonic = FALSE, p = numeric(0), save.time = FALSE, verbose = FALSE, ties.method = "random", achieved.BFDR.fun = estimated.BFDR, ...)
estimated.BFDR(object, alpha, nfeature, P0 = 1, p = numeric(0), n = numeric(0), ndiscovery.correction = 0, correct, verbose = FALSE, ...)
posteriorP0(distr0 = NULL, fam = NULL, x, verbose = FALSE, individual, confidence, unknown.param = NULL, save.time = logical(0), ...)
BFDR(alpha, P0 = 1, prob.discovery, size)