findCorrelation {InTAD} | R Documentation

## Function to perfrom correlation analysis in TADs

### Description

This function combines genes and signals in inside of TADs

### Usage

    findCorrelation(object, method = "pearson", adj.pval = FALSE,
      plot.proportions = FALSE)

### Arguments

`object` | InTADSig object with signals and genes combined in TADS
`method` | Correlation method: "pearson" (default), "kendall", "spearman"
`adj.pval` | Perform p-value adjsutment and include q-values in result
`plot.proportions` | Plot proportions of signals and genes in correlation

### Value

A table with correlation values for signal-gene pairs including correlation p-value, euclidian distance and rank.

### Examples

    ## perform analysis on test data
    inTadSig <- newSigInTAD(enhSel, enhSelGR, rpkmCountsSel, txsSel)
    inTadSig <- filterGeneExpr(inTadSig, geneType = "protein_coding")
    inTadSig <- combineInTAD(inTadSig, tadGR)
    corData <- findCorrelation(inTadSig, method="pearson")

[Package InTAD version 1.12.0 Index]