plot_tipping {microbiome} | R Documentation

## Variation Line Plot

### Description

Plot variation in taxon abundance for many subjects.

### Usage

    plot_tipping(
      x,
      taxon,
      tipping.point = NULL,
      lims = NULL,
      shift = 0.001,
      xlim = NULL
    )

### Arguments

`x` | `phyloseq-class` object
`taxon` | Taxonomic group to visualize.
`tipping.point` | Optional. Indicate critical point for abundance variations to be highlighted.
`lims` | Optional. Figure X axis limits.
`shift` | Small constant to avoid problems with zeroes in log10
`xlim` | Horizontal axis limits

### Details

Assuming the sample_data(x) has 'subject' field and some subjects have multiple time points.

### Value

`ggplot` object

### Author(s)

Contact: Leo Lahti microbiome-admin@googlegroups.com

### References

See citation('microbiome')

### Examples

    data(atlas1006)
    pseq <- subset_samples(atlas1006, DNA_extraction_method == 'r')
    pseq <- transform(pseq, 'compositional')
    p <- plot_tipping(pseq, 'Dialister', tipping.point=1)

[Package microbiome version 1.12.0 Index]