Ttests.Anal: T-test

In flajole/MApckg: R package of MetaboAnalyst functions

Description

Performs group comparison. Creates a file with results: either "Wilcoxon_rank.csv" or "t_test.csv" depending on nonpar argument.

Usage

Ttests.Anal(dataSet, analSet, nonpar = FALSE, thresh = 0.05,
  paired = FALSE, var.equal = TRUE)

Arguments

dataSet	List, data set object generated by MS_to_MA function.
analSet	List, containing the results of statistical analysis (can be just an empty list).
nonpar	If FALSE - use classical t-test; if TRUE - Wilcoxon Rank Test
thresh	Threshold of significance.
paired	Are values in data set paired or not.
var.equal	Are variances assumed equal or not.

Value

Native analSet with one added $tt element consisting of:

• $tt.nm - method of analysis

• $raw.thresh - value of thresh argument

• $thresh - -log10(thresh)

• $p.value - p value

• $p.log - -log10(p.value)

• $inx.imp - logical vector of features with significant difference

• $sig.mat - data frame of significant features

Note

Note, for large data set (> 1000 variables), both the paired information and the group variance will be ignored, and the default parameters will be used for t-tests to save computational time. If you choose non-parametric tests (Wilcoxon rank-sum test), the group variance will be ignored.

See Also

PlotTT for plotting functions

flajole/MApckg documentation built on May 16, 2019, 1:16 p.m.