rnb.calculate.mhl: rnb.calculate.mhl

In schmic05/ISH_package: 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

This function calculates the MHL scores for a given RnBSet and a bam file containing the reads.

Usage

rnb.calculate.mhl(rnb.set, bam.path, roi.path = getwd())

Arguments

rnb.set	RnBSet object containing the CpG sites for which calculation should be conducted
bam.path	path to the bam file containing the reads
roi.path	path to a directory to which output can be added

Value

MHL scores for the CpG sites in the RnBSet with a higher coverage than COVERAGE.THRESHOLD

schmic05/ISH_package documentation built on March 18, 2021, 5:42 p.m.