wrapperClassic1wayAnova: Wrapper for One-way Anova statistical test
In DAPAR: Tools for the Differential Analysis of Proteins Abundance with R

Description Usage Arguments Details Value Author(s) See Also Examples

Wrapper for One-way Anova statistical test

1	wrapperClassic1wayAnova(obj, with_post_hoc = "No", post_hoc_test = "No")

`obj`	An object of class `MSnSet`.
`with_post_hoc`	a character string with 2 possible values: "Yes" and "No" (default) saying if function must perform a Post-Hoc test or not.
`post_hoc_test`	character string, possible values are "No" (for no test; default value) or TukeyHSD" or "Dunnett". See details of `postHocTest()` function to choose the appropriate one.

This function allows to perform a 1-way Analysis of Variance. Also computes the post-hoc tests if the with_post_hoc parameter is set to yes. There are two possible post-hoc tests: the Tukey Honest Significant Differences (specified as "TukeyHSD") and the Dunnett test (specified as "Dunnett").

A list of two dataframes. First one called "logFC" contains all pairwise comparisons logFC values (one column for one comparison) for each analysed feature (Except in the case without post-hoc testing, for which NAs are returned.); The second one named "P_Value" contains the corresponding p-values.

Hélène Borges

[postHocTest()]

utils::data(Exp1_R25_prot, package='DAPARdata')
obj <- Exp1_R25_prot[1:1000]
keepThat <- mvFilterGetIndices(obj, condition='WholeMatrix', threshold=ncol(obj))
obj <- mvFilterFromIndices(obj, keepThat)
anovatest <- wrapperClassic1wayAnova(obj)