aldex.ttest {ALDEx2} | R Documentation |
aldex.ttest
calculates the expected values of the Wilcoxon Rank Sum
test and Welch's t-test on the data returned by aldex.clr
.
aldex.ttest(clr, paired.test = FALSE, hist.plot = FALSE, verbose = FALSE)
clr |
An |
paired.test |
Toggles whether to calculate paired tests. |
hist.plot |
Toggles whether to plot a histogram of p-values for the first Dirichlet Monte Carlo instance. |
verbose |
A boolean. Toggles whether to print diagnostic information while
running. Useful for debugging errors on large datasets. Applies to
|
Returns a data.frame
with the following information:
we.ep |
a vector containing the expected p-value of Welch's t-test for each feature |
we.eBH |
a vector containing the corresponding expected value of the Benjamini-Hochberg corrected p-value for each feature |
wi.ep |
a vector containing the expected p-value of the Wilcoxon Rank Sum test for each feature |
wi.eBH |
a vector containing the corresponding expected value of the Benjamini-Hochberg corrected p-value for each feature |
Greg Gloor
Please use the citation given by
citation(package="ALDEx2")
.
aldex
,
aldex.clr
,
aldex.ttest
,
aldex.kw
,
aldex.glm
,
aldex.effect
,
aldex.corr
,
selex
data(selex) #subset for efficiency selex <- selex[1201:1600,] conds <- c(rep("NS", 7), rep("S", 7)) x <- aldex.clr(selex, conds, mc.samples=2, denom="all") ttest.test <- aldex.ttest(x)