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

Description Usage Arguments Details Value Author(s) See Also Examples

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

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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

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.

Value

A hexbin plot

Author(s)

N. Ari Wijetunga

See Also

makePvalueObject plotDensityPval

Examples

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data(test_annotation_score_data)

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

GreallyLab/SMITE documentation built on May 6, 2019, 6:30 p.m.