plot_matrix {netresponse} | R Documentation

## Visualize a matrix with one or two-way color scale.

### Description

Fast investigation of matrix objects; standard visualization choices are made automatically; fast and easy-to-use but does not necessarily provide optimal visualization.

### Usage

    plot_matrix(mat, type = "twoway", midpoint = 0, palette = NULL,
      colors = NULL, col.breaks = NULL, interval = 0.1, plot_axes = "both",
      row.tick = 1, col.tick = 1, cex.xlab = 0.9, cex.ylab = 0.9,
      xlab = NULL, ylab = NULL, limit.trunc = 0, mar = c(5, 4, 4, 2), ...)

### Arguments

`mat` | matrix
`type` | String. Specifies visualization type. Options: 'oneway' (color scale ranges from white to dark red; the color can be changed if needed); 'twoway' (color scale ranges from dark blue through white to dark red; colors can be changed if needed)
`midpoint` | middle point for the color plot: smaller values are shown with blue, larger are shown with red in type = 'twoway'
`palette` | Optional. Color palette.
`colors` | Optional. Colors.
`col.breaks` | breakpoints for the color palette
`interval` | interval for palette color switches
`plot_axes` | String. Indicates whether to plot x-axis ('x'), y-axis ('y'), or both ('both').
`row.tick` | interval for plotting row axis texts
`col.tick` | interval for plotting column axis texts
`cex.xlab` | use this to specify distinct font size for the x axis
`cex.ylab` | use this to specify distinct font size for the y axis
`xlab` | optional x axis labels
`ylab` | optional y axis labels
`limit.trunc` | color scale limit breakpoint
`mar` | image margins
`...` | optional parameters to be passed to function 'image', see help(image) for further details

### Value

A list with the color palette (colors), color breakpoints (breaks), and palette function (palette.function)

### Author(s)

Leo Lahti microbiome-admin@googlegroups.com

### References

See citation('microbiome')

### Examples

      mat <- rbind(c(1,2,3,4,5), c(1, 3, 1), c(4,2,2))
      plot_matrix(mat, 'twoway', midpoint = 3)

[Package netresponse version 1.40.0 Index]