plotCorAcrossRef: Function to plot correlation across genome

Description Usage Arguments Value Examples

View source: R/plotCorrelation.R

Description

This function creates a plot of correlation strength in target genomic region from the result table. The X-coordinates represent signals, Y-coords represent genes, while each dot represents -log10(P-value) from correlation test. Additionallly all TAD boundaries can be visualized.

Usage

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plotCorAcrossRef(obj, corRes, targetRegion, showCorVals = FALSE,
  symmetric = FALSE, tads = NULL)

Arguments

obj

InTADSig object with signals and genes combined in TADS

corRes

Correlation result table created by function findCorrelation()

targetRegion

Target genomic region visualise.

showCorVals

Use this option to visualize postive correlation values instead of correlation strength

symmetric

Activate mirrow symmetry for gene-signal connections

tads

TAD regions to visualize. By default only TADs persent in correlation result table are applied (NULL value).

Value

A ggplot object for visualization or customization.

Examples

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inTadSig <- newSigInTAD(enhSel, enhSelGR, rpkmCountsSel, txsSel)
inTadSig <- combineInTAD(inTadSig, tadGR)
corData <- findCorrelation(inTadSig, method="pearson")
plotCorAcrossRef(inTadSig,corData,GRanges("chr15:25000000-28000000"))

InTAD documentation built on Feb. 19, 2019, 2 a.m.