chaAllPairsNashimotoTest {PMCMRplus} | R Documentation |
Performs Nashimoto and Wright's all-pairs comparison procedure
for simply ordered mean ranksums (NPY-test).
According to the authors, the procedure shall only be
applied after Chacko's test (see chackoTest
) indicates
global significance.
The modified procedure uses the property of a simple order, θ_m' - θ_m ≤ θ_j - θ_i ≤ θ_l' - θ_l \qquad (l ≤ i ≤ m~\mathrm{and}~ m' ≤ j ≤ l'). The null hypothesis H_{ij}: θ_i = θ_j is tested against the alternative A_{ij}: θ_i < θ_j for any 1 ≤ i < j ≤ k.
In the NPT test the p-values are estimated from the standard normal distribution.
chaAllPairsNashimotoTest(x, ...) ## Default S3 method: chaAllPairsNashimotoTest(x, g, p.adjust.method = c(p.adjust.methods), ...) ## S3 method for class 'formula' chaAllPairsNashimotoTest( formula, data, subset, na.action, p.adjust.method = c(p.adjust.methods), ... )
x |
a numeric vector of data values, or a list of numeric data vectors. |
... |
further arguments to be passed to or from methods. |
g |
a vector or factor object giving the group for the
corresponding elements of |
p.adjust.method |
method for adjusting p values |
formula |
a formula of the form |
data |
an optional matrix or data frame (or similar: see
|
subset |
an optional vector specifying a subset of observations to be used. |
na.action |
a function which indicates what should happen when
the data contain |
Although Nashimoto and Wright (2005) originally did not use any p-adjustment,
any method as available by p.adjust.methods
can
be selected for the adjustment of p-values estimated from
the standard normal distribution.
A list with class "PMCMR"
containing the following components:
a character string indicating what type of test was performed.
a character string giving the name(s) of the data.
lower-triangle matrix of the estimated quantiles of the pairwise test statistics.
lower-triangle matrix of the p-values for the pairwise tests.
a character string describing the alternative hypothesis.
a character string describing the method for p-value adjustment.
a data frame of the input data.
a string that denotes the test distribution.
Nashimoto, K., Wright, F.T. (2007) Nonparametric Multiple-Comparison Methods for Simply Ordered Medians. Comput Stat Data Anal 51, 5068–5076.
## Example from Sachs (1997, p. 402) x <- c(106, 114, 116, 127, 145, 110, 125, 143, 148, 151, 136, 139, 149, 160, 174) g <- gl(3,5) levels(g) <- c("A", "B", "C") chackoTest(x , g) chaAllPairsNashimotoTest(x, g, p.adjust.method = "none")