prepare_plot_data: Prepare PCA plot data

In markgene/yamatClassifier: Yet Another Methylation Array Toolkit: Classifier

Prepare PCA plot data

Description

Prepare PCA plot data

Usage

prepare_plot_data(
  projection,
  pheno,
  batch_name,
  classification_name,
  pc_x_name = "PC1",
  pc_y_name = "PC2"
)

Arguments

projection	A matrix pf PCA projections stored in projected attribute of pca_result object.
pheno	the data.frame of phenotype.
batch_name	the column name of batch in the phenotype data.frame.
classification_name	the column name of classification in the phenotype data.frame.
pc_x_name	column name for PC on X axis. Default to "PC1".
pc_xyname	column name for PC on Y axis. Default to "PC2".

Value

A data.frame has four columns at least: pc_x, pc_y, batch, classification.

markgene/yamatClassifier documentation built on Oct. 14, 2024, 2:36 a.m.