visualize_clusters: Visualize clusters of features

In antonvsdata/amp: Smoothing Metabolomics Analyses

Description

Draws multiple visualizations of each cluster, creating a separate file for each cluster.

Usage

visualize_clusters(data, features, clusters, min_size, rt_window, name_col,
  mz_col, rt_col, file_path)

Arguments

data	data frame with the abundances of features, with features as columns
features	data frame with feature information, fData(object)
clusters	a list of clusters as returned by find_clusters
min_size	the minimum number of features a cluster needs to have to be plotted
rt_window	numeric, the retention time window to use in linking features. NOTE you need to use the same unit as in the retention time column
name_col	character, name of the column in features that contains feature names
mz_col	character, name of the column in features that contains mass-to-charge ratios
rt_col	character, name of the column in features that contains retention times
file_path	the prefix to the files to be plotted

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