Archive for execution time

quantile functions: mileage may vary

Posted in Books, R, Statistics with tags , , , , , , on May 12, 2015 by xi'an

When experimenting with various quantiles functions in R, I was shocked [ok this is a bit excessive, let us say surprised] by how widely the execution times would vary. To the point of blaming a completely different feature of R. Borrowing from Charlie Geyer’s webpage on the topic of probability distributions in R, here is a table for some standard distributions: I ran

u=runif(1e7)
system.time(x<-qcauchy(u))

choosing an arbitrary parameter whenever needed.

Distribution Function Time
Cauchy qcauchy 2.2
Chi-Square qchisq 43.8
Exponential qexp 0.95
F qf 34.2
Gamma qgamma 37.2
Logistic qlogis 1.7
Log Normal qlnorm 2.2
Normal qnorm 1.4
Student t qt 31.7
Uniform qunif 0.86
Weibull qweibull 2.9

Of course, it does not mean much in that all the slow distributions (except for Weibull) are parameterised. Nonetheless, that a chi-square inversion take 50 times longer than a uniform inversion remains puzzling as to why it is not coded more efficiently. In particular, I was wondering why the chi-square inversion was slower than the Gamma inversion. Rerunning both inversions showed that they are equivalent:

> u=runif(1e7)
> system.time(x<-qgamma(u,sha=1.5))
utilisateur système écoulé
 21.534 0.016 21.532
> system.time(x<-qchisq(u,df=3))
utilisateur système écoulé
21.372 0.008 21.361

Which also shows how variable system.time can be.

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