How to find quantiles / p-value after bootstrapping a cor.test kendall

Question

I am using R for my data analysis. I want to find the quantiles / p-value for bootstrapped correlation of two numeric vectors. After calculating the correlation (method = kendall) of the two vectors I bootstrapped the function. Somehow the function for finding the quantiles doesn't work

I am using the #mosaic package and tried the quantile function below. The correlation test for the two vectors and the bootstrapping worked well, but the both quantile functions I tried do not work. Please see my code below:

#Score and Population are the vectors (both numeric), Index 2019 is the dataset I am analysing

##Correlation Kendall
cor.test(Index2019$Score, Index2019$Population,  method="kendall")

##Bootstraping
set.seed(1896)
H1_Bootstrapping <- do(1000) * cor.test(Score~Population, data= resample(Index2019), method="kendall")

#QUANTILE FUNCTIONS I tried
quantile( ~ cor.test, data = H1_Bootstrapping, probs = c(0.025, 0.975))

qdata(~cor.test,probs=c(.05,.95),data = H1_Bootstrapping)

quantile(H1_Bootstrapping, probs=c(0.05,0.95))

quantile(H1_Bootstrapping, probs=c(0.05,0.95),na.rm=TRUE)

I expect the values for 0.05 and 0.95 confidence interval but actually getting following errors when trying above functions:

quantile( ~ cor.test, data = H1_Bootstrapping, probs = c(0.025, 0.975))
ERROR MESSAGE:
Error in quantile.default(eval(formula[[2]], data, .envir), ...) : 
  anyNA() applied to non-(list or vector) of type 'closure'


qdata(~cor.test,probs=c(.05,.95),data = H1_Bootstrapping)
ERROR MESSAGE:
Error in quantile.default(x, ..., na.rm = na.rm) : 
  formal argument "probs" matched by multiple actual arguments


quantile(H1_Bootstrapping, probs=c(0.05,0.95))
ERROR MESSAGE:
Error in quantile.default(x, ..., na.rm = na.rm) : 
  missing values and NaN's not allowed if 'na.rm' is FALSE


quantile(H1_Bootstrapping, probs=c(0.05,0.95),na.rm=TRUE)
ERROR MESSAGE:
Error in (1 - h) * qs[i] : non-numeric argument to binary operator

Can you help me for any of the functions? Many thanks for your help!

Please provide a [reproducible example](https://stackoverflow.com/q/5963269/1217536) for people to work with. — gung - Reinstate Monica, Aug 23 '19 at 19:52

score 1 · Accepted Answer · answered Aug 23 '19 at 20:10

In H1_Bootstrapping$z you can find the bootstrap values of the Kendall correlation.

library(mosaic)
## Generate data
set.seed(12345)
n <- 100
Index2019 <- data.frame(Score=rnorm(n), Population=rnorm(n))

## Correlation Kendall
cor.test(Index2019$Score, Index2019$Population,  method="kendall")

## Bootstraping
set.seed(1896)
H1_Bootstrapping <- do(1000) * cor.test(Score~Population, data= resample(Index2019), 
                                        method="kendall")

## QUANTILE FUNCTIONS
quantile( ~ z, data = H1_Bootstrapping, probs = c(0.05, 0.95))
#         5%        95% 
# -0.6468391  2.4376336

qdata(~z, p=c(.05,.95), data = H1_Bootstrapping)
#       quantile    p
# 5%  -0.6468391 0.05
# 95%  2.4376336 0.95

quantile(H1_Bootstrapping$z, probs=c(0.05,0.95))
#         5%        95% 
# -0.6468391  2.4376336

How to find quantiles / p-value after bootstrapping a cor.test kendall

1 Answers1