calc_score: Calculate score

In markrobinsonuzh/DAMEfinder: Finds DAMEs - Differential Allelicly MEthylated regions

Calculate score

Description

This function calculates the ASM score for every tuple in a given sample. The ASM score is a multiplication of the log odds ratio by a weight that reflects the extent of allele-specific methylation. This weight is obtained with the calc_weight function.

Usage

calc_score(df, beta = 0.5, a = 0.2)

Arguments

df	data frame of a sample containing all information per tuple (MM,UU,UM and MU counts, as well as the log odds ratio per tuple) needed for the ASM score.
beta	parameter for the calc_weight function. It's the alpha and beta values for the Beta function.
a	parameter for the calc_weight function. The weight will be the probability that the MM/(MM+UU) ratio lies between 0.5-a and 0.5+a.

Details

This function returns an allele-specific methylation (ASM) score for every given tuple in a sample. The ASM score is a product of the log odds ratio and a weight reflecting a measure of allele-specificity using the MM and UU counts.

Value

The same object with an additional column for the ASM score.

markrobinsonuzh/DAMEfinder documentation built on April 7, 2023, 6:37 a.m.