ngsLCA_heatmap: Generate Taxa Abundance Heatmaps

In wyc661217/ngsLCA: Process and Visualize Lca Files and Taxonomic Profiles

Generate Taxa Abundance Heatmaps

Description

Generate heatmaps for taxa profiles into "path/run/heatmap/" to show the reads abundance of each taxon.

Usage

ngsLCA_heatmap(path, run = "run01", taxa.number = 30)

Arguments

path	working directory, same to ngsLCA_profile.
run	name of the run, default is "run01".
taxa.number	maximum number of taxa will be shown in heatmaps; default is 30.

Value

Taxa abundance heatmaps.

Examples

ngsLCA_heatmap(path=system.file("extdata","lca_files",package="ngsLCA"),
               run="run01",
               taxa.number=20)


## This will generate heatmaps for the complete taxa profile
## as well as taxa groups and ranks (if available) of "run01"
## in "path/run01/heatmap/", with showing the 20 most abundant
## taxa in each profile.

wyc661217/ngsLCA documentation built on June 2, 2025, 12:02 a.m.