volcano_plot_fc_tt: Volcano plot

In specmine: Metabolomics and Spectral Data Analysis and Mining

Description

Volcano plot to intersect the results from t-tests and fold change.

Usage

volcano_plot_fc_tt(dataset, fc.results, tt.results, 
fc.threshold = 2, tt.threshold = 0.01)

Arguments

dataset	list representing the dataset from a metabolomics experiment.
fc.results	fold change results.
tt.results	t-tests results.
fc.threshold	fold change threshold value.
tt.threshold	t-test p-value threshold.

Value

Returns the name of the samples which intersects both fold change and t-tests results above the given thresholds.

Examples

    ## Example of a volcano plot
	library(specmine.datasets)
    data(cachexia)
    foldchange.results = fold_change(cachexia, "Muscle.loss", "control")
    ttests.results = tTests_dataset(cachexia, "Muscle.loss")
    volcano_plot_fc_tt(cachexia, foldchange.results, ttests.results, 
		       fc.threshold = 2, tt.threshold = 0.01)

specmine documentation built on Sept. 21, 2021, 5:06 p.m.