biplot_corrections: Biplot batch corrections

In bhagwataditya/autonomics: Unified Statistical Modeling of Omics Data

Biplot batch corrections

Description

Biplot batch corrections

Usage

biplot_corrections(
  object,
  method = "pca",
  by = "sample_id",
  color = "subgroup",
  covariates = character(0),
  varcols = ceiling(sqrt(1 + length(covariates))),
  plot = TRUE
)

Arguments

object	SummarizedExperiment
method	'pca', 'pls', 'lda', or 'sma'
by	svar
color	variable mapped to color (symbol)
covariates	covariates to be batch-corrected
varcols	number of covariate columns
plot	TRUE/FALSE: plot?

Value

grid object

See Also

biplot_covariates

Examples

file <- system.file('extdata/atkin.metabolon.xlsx', package = 'autonomics')
object <- read_metabolon(file, pca = TRUE, plot = FALSE)
biplot_corrections(object, color = 'subgroup', covariates = c('Sex', 'Diabetes', 'Subject', 'Time'))

bhagwataditya/autonomics documentation built on Dec. 1, 2024, 12:27 a.m.