confounders_lsq_barchart {structToolbox}R Documentation

barchart of percent change

Description

plots a barchart of the percent change when including a confounding factor in a classical least squares model

Usage

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

Arguments

feature_to_plot

the name or index of the feature to be plotted

threshold

the threshold to be plotted (in %)

...

additional slots and values passed to struct_class

Value

A STRUCT chart object

struct 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('sample_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 1.0.1 Index]