JBA_plotBins {MWASTools} | R Documentation

## Visualization of JBA bins

### Description

This function allows visualizing the bins generated by the JBA algorithm.

### Usage

    JBA_plotBins(NMR_JBA, NMR_data, ct = 0.85, ref_sample = 1, xlim = NULL,
                 ylim = NULL)

### Arguments

`NMR_JBA` | list corresponding to the output of "JBA_binning()".
`NMR_data` | numeric matrix containing the NMR data (i.e. NMR peak intensities). The columns of the matrix must correspond to the metabolic variables (chemical shifts) and the rows to the samples. Column and row names must contain the metabolite IDs (i.e chemical shifts) and the sample IDs, respectively.
`ct` | numeric value indicating the correlation threshold. Bins with average correlation below ct will be neglected. This value can be established by comparing the distribution of average correlations in a spectral region dominated by electronic noise, and a spectral region dominated by metabolic signals. See function "JBA_corDistribution()".
`ref_sample` | numeric value indicating the index of the reference spectrum.
`xlim` | numeric vector containing the minimum and maximum values of the x axis.
`ylim` | numeric vector containing the minimum and maximum values of the y axis.

### Value

A plot with two panels. The upper panel shows the reference spectrum with the bin edges (start: dark blue, end: light blue). The lowe panel shows the corresponding correlation-based spectrum.

### Examples

    ## Not available.

[Package MWASTools version 1.12.0 Index]