clusterSampleHeatmap2: 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

clusterSampleHeatmap2(
  mat,
  method = "pearson",
  digits = 4,
  cor_file = NULL,
  saveplot = NULL,
  ...
)

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".
...	Additional parameters given to plot output (pdf, png,...) like "width", "height", .etc.

Value

Nothing

Examples

df = generateAbundanceDF()
clusterSampleHeatmap2(df)

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