save_subject_line_plots: Save line plots with mean

In antonvsdata/amp: Smoothing Metabolomics Analyses

Description

Plots the change in the feature abundances as a function of e.g. time. A line is drawn for each subject and a mean line is added. A separate plot is drawn for each feature.

Usage

save_subject_line_plots(object, all_features = FALSE, file, width = 8,
  height = 6, x = time_col(object), id = subject_col(object),
  color = NA, color_scale = NULL, facet = NULL)

Arguments

object	a MetaboSet object
all_features	logical, should all features be used? If FALSE (the default), flagged features are removed before visualization.
file	path to the PDF file where the plots should be saved
width, height	width and height of the plots in inches
x	character, name of the column to be used as x-axis
id	character, name of the column containing subject IDs
color	character, the column name to color the lines by (optional)
color_scale	the color scale as returned by a ggplot function
facet	character, the column name to facet by (optional, usually same as color)

Examples

## Not run: save_subject_line_plots(drop_qcs(example_set), file = "subject_lines.pdf")

antonvsdata/amp documentation built on Jan. 8, 2020, 3:15 a.m.