abun_occ_plot: abun_occ_plot

In lindan1128/coreMicrobiome: Core microbiome analysis and visualization

abun_occ_plot

Description

Plots occupancy vs abunbance.

Usage

abun_occ_plot(otu, sample, mini_abun, threshold, sample_name, sample_group)

Arguments

otu	a community count data matrix with samples in rows and OTUs/taxa in column,
sample	a sample information data.frame. The rownames must match the sample names in the otu,
mini_abun	a value indicating whether the otu is present,
threshold	a value indicating the final percent increase in beta-diversity,
sample_name	the name of a column that containing the sample name,
sample_group	the name of a column that containing the sample type/group,

Details

Plots occupancy vs abunbance.

Value

A scatter plot showing the relationship between occupancy and abundance with color denoting and core or non-core otu.

Examples

 abun_occ_plot(otu, sample, mini_abun=0, threshold=0.02, sample_name, sample_group)

lindan1128/coreMicrobiome documentation built on May 5, 2022, 8:24 p.m.