plotCompareScores: Compare two genomic features by score and display them in a hexbin plot

Description

This function creates a hexbin of the log transformed p-value/score for any two expression or modification-context pairing within a PvalueObject inside of a PvalueAnnotation

Usage

plotCompareScores(pvalue_annotation, x_name, y_name, ...)

Arguments

pvalue_annotation

An S4 object of class PvalueAnnotation for which a PvalueObject has already been created

x_name

A string to be grepped from the columns within the slot "pval_data" that is within the PvalueAnnotation slot "score_data." This column will be plotted on the x-axis with a direction specified from the corresponding effect column.

y_name

A string to be grepped from the columns within the slot "pval_data" that is within the PvalueAnnotation slot "score_data." This column will be plotted on the y-axis with a direction specified from the corresponding effect column.

...

Other plotting parameters

Value

A hexbin plot

Details

This plotting function creates a hexbin plot of any two p-value vectors stored within a p-value object. It can be used to define relationships between direction and significance in different genomic contexts after having combined p-values.

Examples

Run this code

data(test_annotation_score_data)

plotCompareScores(pvalue_annotation=test_annotation, x_name="expression", 
y_name="methylation_promoter")