degCorCov {DEGreport} | R Documentation

## Calculate the correlation relationshipt among all covariates in the metadata table

### Description

This function will calculate the correlation among all columns in the metadata

### Usage

    degCorCov(metadata, fdr = 0.05, use_pval = FALSE, ...)

### Arguments

`metadata` | data.frame with samples metadata.
`fdr` | numeric value to use as cutoff to determine the minimum fdr to consider significant correlations between pcs and covariates.
`use_pval` | boolean to indicate to use p-value instead of FDR to hide non-significant correlation.
`...` | Parameters to pass to `ComplexHeatmap::Heatmap()`.

### Value

: list: a) cor, data.frame with pair-wise correlations, pvalues, FDR b) corMat, data.frame with correlation matrix c) fdrMat, data.frame with FDR matrix b) plot, Heatmap plot of correlation matrix

### Author(s)

: Lorena Pantano, Kenneth Daily and Thanneer Malai Perumal

### Examples

    data(humanGender)
    library(DESeq2)
    idx <- c(1:10, 75:85)
    dse <- DESeqDataSetFromMatrix(assays(humanGender)[[1]][1:1000, idx],
      colData(humanGender)[idx,], design=~group)
    cor <- degCorCov(colData(dse))

[Package DEGreport version 1.28.0 Index]