filter_out: Filter out events located in heterogeneity areas

In malemay/delgbs: Detection of deletions and duplications from GBS data

Filter out events located in heterogeneity areas

Description

Filter out events located in heterogeneity areas

Usage

filter_out(event_data, het_regions, min_overlap = 0)

Arguments

event_data	a data.frame of events such as generated by function getdels
het_regions	a data.frame of genomic ranges to be used for filtering out events located in these regions.
min_overlap	a single numeric value between 0 and 1. The minimal proportion of the length of the event that must overlap with a region listed in het_sites for this event to be filtered out. A value of 0 results in an overlap of even a single nucleotide to be removed, whereas a value of 1 results in only CNVs entirely located in a specified region to be removed.

Value

a data.frame of read counts similar to that given as input, but with events removed according to the specified filters.

Examples

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malemay/delgbs documentation built on Feb. 1, 2024, 8:38 a.m.