krandtest: Class of the Permutation Tests (in C).

In ade4: Analysis of Ecological Data: Exploratory and Euclidean Methods in Environmental Sciences

Class of the Permutation Tests (in C).

Description

Plot, print and extract permutation tests. Objects of class 'krandtest' are lists.

Usage

as.krandtest(sim, obs, alter = "greater", call = match.call(),
  names = colnames(sim), p.adjust.method = "none", output = c("light", "full"))

## S3 method for class 'krandtest'
plot(x, mfrow = NULL, nclass = 10, main.title = x$names, ...)
## S3 method for class 'krandtest'
print(x, ...)
## S3 method for class 'krandtest'
x[i]
## S3 method for class 'krandtest'
x[[i]]

Arguments

sim	a matrix or data.frame of simulated values (repetitions as rows, number of tests as columns
obs	a numeric vector of observed values for each test
alter	a vector of character specifying the alternative hypothesis for each test. Each element must be one of "greater" (default), "less" or "two-sided". The length must be equal to the length of the vector obs, values are recycled if shorter.
call	a call order
names	a vector of names for tests
p.adjust.method	a string indicating a method for multiple adjustment, see p.adjust.methods for possible choices.
output	a character string specifying if all simulations should be stored ("full"). This was the default until ade4 1.7-5. Now, by default ("light"), only the distribution of simulated values is stored in element plot as produced by the hist function.
x	an object of class 'krandtest'
mfrow	a vector of the form 'c(nr,nc)', otherwise computed by as special own function n2mfrow
nclass	a number of intervals for the histogram. Ignored if object output is "light"
main.title	a string of character for the main title
...	further arguments passed to or from other methods
i	numeric indices specifying elements to extract

Value

plot.krandtest draws the p simulated values histograms and the position of the observed value. [.krandtest returns a krandtest object and [[.krandtest returns a randtest object.

Author(s)

Daniel Chessel and Stéphane Dray [e-mail]

See Also

randtest

Examples

wkrandtest <- as.krandtest(obs = c(0, 1.2, 2.4, 3.4, 5.4, 20.4), 
  sim = matrix(rnorm(6*200), 200, 6))
wkrandtest
plot(wkrandtest)
wkrandtest[c(1, 4, 6)]
wkrandtest[[1]]

ade4 documentation built on Feb. 16, 2023, 7:58 p.m.