Running examples in ‘rMisbeta-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: performance.eval
> ### Title: This function estimates the different performance indices like,
> ###   TPR,TNR,FPR,FNR,AUC etc. for number of top genes
> ### Aliases: performance.eval
> 
> ### ** Examples
> 
> # Performance evaluation in presence of outliers and missing values
> nG=1000
> n1=n2=5
> pde=0.1
> Simdat=Sim2Group(nG,n1,n2,var0=0.1,pde=0.1) 
> xx=Simdat$outmat
> TrueDE=Simdat$DEtrue
> MisOutdat<-OutMisDat(xx,pctOut=0.1,pctMis=0.1)
> misdat_zero<-MisOutdat
> misdat_zero[is.na(misdat_zero)]<-0
> cl=rep(c(1,2),each=n1)
> 
> res=remat(MisOutdat,cl)
> up_mat<-res$remat
> 
> 
> pTtest_zero<-pTtest_beta<-NULL
> for (j1 in 1:dim(xx)[1])
+ {
+ DataYY <- data.frame(YY =misdat_zero[j1,], FactorLevels = factor(cl))
+ DataYY2 <- data.frame(YY2=up_mat[j1,], FactorLevels2 = factor(cl))
+ pTtest_zero[j1] <-  t.test(YY~FactorLevels,data=DataYY, paired=FALSE)[[3]]
+ pTtest_beta[j1] <-  t.test(YY2~FactorLevels2,data=DataYY2, paired=FALSE)[[3]]
+ } 
Error in t.test.formula(YY ~ FactorLevels, data = DataYY, paired = FALSE) : 
  cannot use 'paired' in formula method
Calls: t.test -> t.test.formula
Execution halted
Running examples in ‘rMisbeta-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: performance.eval
> ### Title: This function estimates the different performance indices like,
> ###   TPR,TNR,FPR,FNR,AUC etc. for number of top genes
> ### Aliases: performance.eval
> 
> ### ** Examples
> 
> # Performance evaluation in presence of outliers and missing values
> nG=1000
> n1=n2=5
> pde=0.1
> Simdat=Sim2Group(nG,n1,n2,var0=0.1,pde=0.1) 
> xx=Simdat$outmat
> TrueDE=Simdat$DEtrue
> MisOutdat<-OutMisDat(xx,pctOut=0.1,pctMis=0.1)
> misdat_zero<-MisOutdat
> misdat_zero[is.na(misdat_zero)]<-0
> cl=rep(c(1,2),each=n1)
> 
> res=remat(MisOutdat,cl)
> up_mat<-res$remat
> 
> 
> pTtest_zero<-pTtest_beta<-NULL
> for (j1 in 1:dim(xx)[1])
+ {
+ DataYY <- data.frame(YY =misdat_zero[j1,], FactorLevels = factor(cl))
+ DataYY2 <- data.frame(YY2=up_mat[j1,], FactorLevels2 = factor(cl))
+ pTtest_zero[j1] <-  t.test(YY~FactorLevels,data=DataYY, paired=FALSE)[[3]]
+ pTtest_beta[j1] <-  t.test(YY2~FactorLevels2,data=DataYY2, paired=FALSE)[[3]]
+ } 
Error in t.test.formula(YY ~ FactorLevels, data = DataYY, paired = FALSE) : 
  cannot use 'paired' in formula method
Calls: t.test -> t.test.formula
Execution halted
Running examples in ‘rMisbeta-Ex.R’ failed
The error most likely occurred in:

> ### Name: performance.eval
> ### Title: This function estimates the different performance indices like,
> ###   TPR,TNR,FPR,FNR,AUC etc. for number of top genes
> ### Aliases: performance.eval
> 
> ### ** Examples
> 
> # Performance evaluation in presence of outliers and missing values
> nG=1000
> n1=n2=5
> pde=0.1
> Simdat=Sim2Group(nG,n1,n2,var0=0.1,pde=0.1) 
> xx=Simdat$outmat
> TrueDE=Simdat$DEtrue
> MisOutdat<-OutMisDat(xx,pctOut=0.1,pctMis=0.1)
> misdat_zero<-MisOutdat
> misdat_zero[is.na(misdat_zero)]<-0
> cl=rep(c(1,2),each=n1)
> 
> res=remat(MisOutdat,cl)
> up_mat<-res$remat
> 
> 
> pTtest_zero<-pTtest_beta<-NULL
> for (j1 in 1:dim(xx)[1])
+ {
+ DataYY <- data.frame(YY =misdat_zero[j1,], FactorLevels = factor(cl))
+ DataYY2 <- data.frame(YY2=up_mat[j1,], FactorLevels2 = factor(cl))
+ pTtest_zero[j1] <-  t.test(YY~FactorLevels,data=DataYY, paired=FALSE)[[3]]
+ pTtest_beta[j1] <-  t.test(YY2~FactorLevels2,data=DataYY2, paired=FALSE)[[3]]
+ } 
Error in t.test.formula(YY ~ FactorLevels, data = DataYY, paired = FALSE) : 
  cannot use 'paired' in formula method
Calls: t.test -> t.test.formula
Execution halted
Running examples in ‘rMisbeta-Ex.R’ failed
The error most likely occurred in:

> ### Name: performance.eval
> ### Title: This function estimates the different performance indices like,
> ###   TPR,TNR,FPR,FNR,AUC etc. for number of top genes
> ### Aliases: performance.eval
> 
> ### ** Examples
> 
> # Performance evaluation in presence of outliers and missing values
> nG=1000
> n1=n2=5
> pde=0.1
> Simdat=Sim2Group(nG,n1,n2,var0=0.1,pde=0.1) 
> xx=Simdat$outmat
> TrueDE=Simdat$DEtrue
> MisOutdat<-OutMisDat(xx,pctOut=0.1,pctMis=0.1)
> misdat_zero<-MisOutdat
> misdat_zero[is.na(misdat_zero)]<-0
> cl=rep(c(1,2),each=n1)
> 
> res=remat(MisOutdat,cl)
> up_mat<-res$remat
> 
> 
> pTtest_zero<-pTtest_beta<-NULL
> for (j1 in 1:dim(xx)[1])
+ {
+ DataYY <- data.frame(YY =misdat_zero[j1,], FactorLevels = factor(cl))
+ DataYY2 <- data.frame(YY2=up_mat[j1,], FactorLevels2 = factor(cl))
+ pTtest_zero[j1] <-  t.test(YY~FactorLevels,data=DataYY, paired=FALSE)[[3]]
+ pTtest_beta[j1] <-  t.test(YY2~FactorLevels2,data=DataYY2, paired=FALSE)[[3]]
+ } 
Error in t.test.formula(YY ~ FactorLevels, data = DataYY, paired = FALSE) : 
  cannot use 'paired' in formula method
Calls: t.test -> t.test.formula
Execution halted
Running examples in 'rMisbeta-Ex.R' failed
The error most likely occurred in:

> ### Name: performance.eval
> ### Title: This function estimates the different performance indices like,
> ###   TPR,TNR,FPR,FNR,AUC etc. for number of top genes
> ### Aliases: performance.eval
> 
> ### ** Examples
> 
> # Performance evaluation in presence of outliers and missing values
> nG=1000
> n1=n2=5
> pde=0.1
> Simdat=Sim2Group(nG,n1,n2,var0=0.1,pde=0.1) 
> xx=Simdat$outmat
> TrueDE=Simdat$DEtrue
> MisOutdat<-OutMisDat(xx,pctOut=0.1,pctMis=0.1)
> misdat_zero<-MisOutdat
> misdat_zero[is.na(misdat_zero)]<-0
> cl=rep(c(1,2),each=n1)
> 
> res=remat(MisOutdat,cl)
> up_mat<-res$remat
> 
> 
> pTtest_zero<-pTtest_beta<-NULL
> for (j1 in 1:dim(xx)[1])
+ {
+ DataYY <- data.frame(YY =misdat_zero[j1,], FactorLevels = factor(cl))
+ DataYY2 <- data.frame(YY2=up_mat[j1,], FactorLevels2 = factor(cl))
+ pTtest_zero[j1] <-  t.test(YY~FactorLevels,data=DataYY, paired=FALSE)[[3]]
+ pTtest_beta[j1] <-  t.test(YY2~FactorLevels2,data=DataYY2, paired=FALSE)[[3]]
+ } 
Error in t.test.formula(YY ~ FactorLevels, data = DataYY, paired = FALSE) : 
  cannot use 'paired' in formula method
Calls: t.test -> t.test.formula
Execution halted