| confounders_lsq_barchart {structToolbox} | R Documentation |
plots a barchart of the percent change when including a confounding factor in a classical least squares model
confounders_lsq_barchart(feature_to_plot, threshold = 10, ...)
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 |
A STRUCT chart object
struct object
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])