plot_landscape {microbiome} | R Documentation

## Landscape Plot

### Description

Plot abundance landscape ie. sample density in 2D projection landscape

### Usage

    plot_landscape(x, method = "NMDS", distance = "bray", col = NULL,
      main = NULL, x.ticks = 10, rounding = 0, add.points = TRUE,
      adjust = 1, size = 1, legend = FALSE)

### Arguments

`x` | `phyloseq-class` object or a data matrix (features x samples; eg. HITChip taxa vs. samples)
`method` | Ordination method, see phyloseq::plot_ordination
`distance` | Ordination distance, see phyloseq::plot_ordination
`col` | Variable name to highlight samples (points) with colors
`main` | title text
`x.ticks` | Number of ticks on the X axis
`rounding` | Rounding for X axis tick values
`add.points` | Plot the data points as well
`adjust` | Kernel width adjustment
`size` | point size
`legend` | plot legend TRUE/FALSE

### Details

For consistent results, set random seet (set.seed) before function call

### Value

A `ggplot` plot object.

### Examples

    data(dietswap)
    p <- plot_landscape(abundances(transform(dietswap, "log10"))[, 1:2])

[Package microbiome version 1.0.2 Index]