array_plotPCA: Generate PCA QC Plot

In kauralasoo/eQTLUtils:

Generate PCA QC Plot

Description

Generate PCA QC Plot

Usage

array_plotPCA(
  se,
  assay_name = "exprs",
  filter_quality = TRUE,
  show_quality = FALSE,
  html_output = FALSE,
  output_dir = "./"
)

Arguments

se	SummarizedExperiment file to be analysed
assay_name	Assay name to be analysed (exprs, norm_exprs or batch_exprs)
filter_quality	Boolean value if samples with RNA_QC_passed = FALSE should be excluded (Default:TRUE)
show_quality	Boolean value if samples with RNA_QC_passed = FALSE should be highlighted (Default:FALSE)
html_output	Boolean value if html output should be created (Default:FALSE)
output_dir	html file output dir, if html_output is TRUE (Default:current directory)

Value

PCA plot of study

Author(s)

Liis Kolberg

kauralasoo/eQTLUtils documentation built on March 12, 2023, 8:50 p.m.