correlation: Correlation

In steinbaugh/DESeqAnalysis: DESeq2 Analysis Utilities

Description

Correlation

Usage

correlation(x, y, ...)

## S4 method for signature 'DESeqResults,DESeqResults'
correlation(
  x,
  y,
  col = "log2FoldChange",
  method = c("pearson", "kendall", "spearman")
)

## S4 method for signature 'DESeqAnalysis,missingOrNULL'
correlation(
  x,
  y = NULL,
  i,
  j,
  col = "log2FoldChange",
  method = c("pearson", "kendall", "spearman")
)

Arguments

x	Object.
y	Object.
col	character(1). Column name.
method	a character string indicating which correlation coefficient (or covariance) is to be computed. One of "pearson" (default), "kendall", or "spearman": can be abbreviated.
i	integer(1) or character(1). For SummarizedExperiment, primary assay.
j	integer(1), character(1), or NULL. For SummarizedExperiment, optional secondary assay. If NULL, calculates correlation matrix only on the primary assay.
...	Additional arguments.

Value

numeric(1) or matrix.

Note

Updated 2020-08-05.

See Also

• stats::cor().

• stats::cor.test().

• stats::sd().

• S4Vectors::cor().

• https://stats.stackexchange.com/questions/24980

Examples

data(deseq)

## DESeqAnalysis ====
correlation(deseq, i = 1L, j = 2L)

steinbaugh/DESeqAnalysis documentation built on Oct. 15, 2020, 2:02 a.m.