clusterSampleUpperTriPlot: Compute and plot column correlation matrix. Normally used to...

In Tong-Chen/ImageGP: For ImageGP cloud platform (https://www.bic.ac.cn/BIC)

Compute and plot column correlation matrix. Normally used to do sample corealtion of gene expression or OTU abundance matrix.

Description

Compute and plot column correlation matrix. Normally used to do sample corealtion of gene expression or OTU abundance matrix.

Usage

clusterSampleUpperTriPlot(
  mat,
  method = "pearson",
  digits = 4,
  cor_file = NULL,
  saveplot = NULL,
  width = 13.5,
  height = 15,
  ...
)

Arguments

mat	A dataframe.
method	Type of correlation coefficient given to cor. Default "pearson".
digits	Number of decimial digits (given to round) to keep (default 4).
cor_file	Save ordered correlation matrix to given file name.
saveplot	Save plot to given file "a.pdf", "b.png".
width	Picture width in "cm".
height	Picture height in "cm".
...	Additional parameters given to ggsave.

Value

A ggplot2 object

Examples

df = generateAbundanceDF()
clusterSampleUpperTriPlot(df)

Tong-Chen/ImageGP documentation built on April 14, 2025, 12:54 p.m.