plot_indsp: Plot Indicator species Analysis Results
In pmartR/pmartRseq: Analysis and Visualization of 16S Data

Description Usage Arguments Details Value Author(s) References Examples

This function plots the results from an indicator species analysis.

1	plot_indsp(indsp, omicsData, x_axis = "Group", group = "Phylum")

`indsp`	an indicator species analysis results object, created by `indsp_calc`
`omicsData`	an object of the class 'seqData' created by `as.seqData`.
`x_axis`	which grouping value to put on the x-axis. Default is "Group".
`group`	Which taxonomic level to group the results by. Default is "Phylum".

This function creates a heatmap-type plot showing the results of an indicator species analysis.

A plot of indicator species analysis results.

Allison Thompson

De Cáceres, M. and Legendre, P. 2009. Associations between species and groups of sites: indices and statistical inference. Ecology 90(12): 3566-3574.

## Not run: 
library(mintJansson)
data(rRNA_data)
rRNA_data <- group_designation(omicsData = rRNA_data, main_effects = c("site", "treatment"), time_course=NULL)
rRNA_norm <- normalize_data(omicsData = rRNA_data, norm_fn = "css", normalize = TRUE)

rRNA_indsp <- indsp_calc(omicsData = rRNA_norm, within=NULL, pval_thresh=0.05)
head(rRNA_indsp)
summary(rRNA_indsp)
plot_indsp(indsp = rRNA_indsp, omicsData = rRNA_data)

## End(Not run)