calculate.fdrp.site: calculate.fdrp.site This function compute the FDRP score for...

In MPIIComputationalEpigenetics/WSHPackage: R package for the calculation of the following Within-Sample Heterogeneity Scores in Bisulfite Sequencing Data: FDRP, qFDRP, PDR, Epipolymorphism, Methylation Entropy and MHL

Description

calculate.fdrp.site This function compute the FDRP score for a given cpg site.

Usage

calculate.fdrp.site(pos, cpg, reads, site)

Arguments

pos	index of the cpg site
cpg	list containing the mapping from each cpg site to the reads that contain this site
reads	GRanges object containing the reads needed for the calculation of the FDRP, already converted into the custom representation
site	position of the CpG site of interest as an integer number

Details

This function is called by calculate.fdrps.chromosome each CpG present on the chormosome and calls compute.discordant for each pair of reads.

Value

FDRP score for the given CpG site

Author(s)

Michael Scherer we actually calculate the FDRP as frac#discordant read pairs#all read pairs

MPIIComputationalEpigenetics/WSHPackage documentation built on Dec. 14, 2021, 11:49 a.m.