R: Plot a Spectra Object Interactively

plotSpectraJS {ChemoSpec} | R Documentation

## Plot a Spectra Object Interactively

### Description

This function uses the d3.js JavaScript library by Mike Bostock to plot a `Spectra` object interactively. This is most useful for data exploration. For high quality plots, consider `plotSpectra`.

### Usage

    plotSpectraJS(spectra, which = NULL, browser = NULL, minify = TRUE)

### Arguments

`spectra` | An object of S3 class `Spectra` to be checked.
`which` | Integer. If not `NULL`, specifies by number which spectra to plot. If greater control is needed, use `removeSample` which is more flexible before calling this function.
`browser` | Character. Something that will make sense to your OS. Only necessary if you want to override your system specified browser as understood by `R`. See below for further details.
`minify` | Logical. Shall the JavaScript be minified? This improves performance. However, it requires package `js` which in turn requires package `V8`. The latter is not available on all platforms. Details may be available at https://github.com/jeroenooms/v8

### Details

The spectral data are incorporated into the web page. Keep in mind that very large data sets, like NMR spectra with 32K points, will bog down the browser. In these cases, you may need to limit the number of samples in passed to this function. See `removeSample` or use argument `which`.

### Value

None; side effect is an interactive web page. The temporary directory containing the files that drive the web page is written to the console in case you wish to use those files. This directory is deleted when you quit R. If you wish to read the file, don't minify the code, it will be unreadable.

### Browser Choice

The browser is called by `browseURL`, which in turn uses `options("browser")`. Exactly how this is handled is OS dependent.

### RStudio Viewer

If browser is `NULL`, you are using RStudio, and a viewer is specified, this will be called. You can stop this by with `options(viewer = NULL)`.

### Browser Choice (Mac)

On a Mac, the default browser is called by `/bin/sh/open` which in turn looks at which browser you have set in the system settings. You can override your default with `browser = "/usr/bin/open -a 'Google Chrome'"` for example.

### Browser Choice & Performance

You can check the performance of your browser at peacekeeper.futuremark.com The most relevant score is the rendering category.

### Author(s)

Bryan A. Hanson, DePauw University.

### References

https://github.com/bryanhanson/ChemoSpec

### See Also

`plotSpectra` for non-interactive plotting. Details about `d3.js` are at www.d3js.org.

### Examples

    if (interactive()) {
      require("jsonlite")
      require("js")
      data(metMUD2)
      plotSpectraJS(metMUD2)
    }

[Package ChemoSpec version 4.4.97 Index]