confounders_lsq_barchart {structToolbox} | R Documentation

## Confounding factor relative change barchart

### Description

A barchart of the relative change (delta) in regression coefficient when potential confounding factors are included, and excluded, from the model. Factors with a large delta are considered to be confounding factors.

### Usage

    confounders_lsq_barchart(feature_to_plot, threshold = 10, ...)

### Arguments

`feature_to_plot` | (numeric, character, integer) The column name of the feature to be plotted.
`threshold` | (numeric) A horizontal line is plotted to indicate the threshold. The default is `10`.
`...` | Additional slots and values passed to `struct_class`.

### Value

A `confounders_lsq_barchart` object. This object has no `output` slots. See `chart_plot` in the `struct` package to plot this chart object.

### Examples

    D = MTBLS79_DatasetExperiment()
    M = filter_by_name(mode='include',dimension='variable',
            names=colnames(D$data)[1:10]) + # first 10 features
        filter_smeta(mode='exclude',levels='QC',
            factor_name='Class') + # reduce to two group comparison
        confounders_clsq(factor_name = 'Class',
            confounding_factors=c('run_order','Batch'))
    M = model_apply(M,D)
    C = C=confounders_lsq_barchart(feature_to_plot=1,threshold=15)
    chart_plot(C,M[3])

[Package structToolbox version 1.6.1 Index]