CODEWITHSUNDEEP
rprobability
Andrew
Andrew

Reputation: 38639

How do I calculate the probability for a given quantile in R?

Using R, it is trivial to calculate the quantiles for given probabilities in a sampled distribution:

x <- rnorm(1000, mean=4, sd=2)
quantile(x, .9) # results in 6.705755

However, I can't find an easy way to do the inverse—calculate the probability for a given quantile in the sample x. The closest I've come is to use pnorm() with the same mean and standard deviation I used when creating the sample:

pnorm(5, mean=4, sd=2) # results in 0.6914625

However, because this is calculating the probability from the full normal distribution, and not the sample x, it's not entirely accurate.

Is there a function that essentially does the inverse of quantile()? Something that essentially lets me do the same thing as pnorm() but with a sample? Something like this:

backwards_quantile(x, 5)

I've found the ecdf() function, but can't figure out a way to make it result in a single probability instead of a full equation object.

Upvotes: 27

Views: 22888

Answers (3)

Svein Olav Nyberg
Svein Olav Nyberg

Reputation: 91

You more or less have the answer yourself. When you want to write

backwards_quantile(x, 5)

just write

ecdf(x)(5)

This corresponds to the inverse of quantile() with type=1. However, if you want other types (I favour the NIST standard, corresponding to Excel's Percentile.exc, which is type=6), you have more work to do.

In these latter cases, consider which use you are going to put it to. If all you want is to plot it, for instance, then consider

yVals<-seq(0,1,0.01)
plot(quantile(x,yVals,type=6))

But if you want the inverse for a single value, like 5, then you need to write a solving function to find the P that makes

quantile(x,P,type=6) = 5

For instance this, which uses binary search between the extreme values of x:

inverse_quantile<-function(x,y,d=0.01,type=1) {
  A<-min(x)
  B<-max(x)
  k<-(log((B-A)/d)/log(2))+1
  P=0.5
  for (i in 1:k) {
    P=P+ifelse((quantile(x,P,type=type)<y),2^{-i-1},-2^{-i-1})
  }
  P
}

So if you wanted the type 4 quantile of your set x for the number 5, with precision 0.00001, then you would write

inverse_quantile<-function(x,5,d=0.00001,type=4)

Upvotes: 4

xm1
xm1

Reputation: 1765

Just for convenience, this function helps: 

quantInv <- function(distr, value) ecdf(distr)(value)
set.seed(1)
x <- rnorm(1000, mean=4, sd=2)
quantInv(x, c(4, 5, 6.705755))
[1] 0.518 0.685 0.904

Upvotes: 3

Vincent Zoonekynd
Vincent Zoonekynd

Reputation: 32351

ecdf returns a function: you need to apply it.

f <- ecdf(x)
f( quantile(x,.91) )
# Equivalently:
ecdf(x)( quantile(x,.91) )

Upvotes: 24

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