processReadLinks: Filter and plot significant connections between read pairs

In daewoooo/primatR: What the Package Does (TODO)

Filter and plot significant connections between read pairs

Description

This function takes condidate links and filter all spurious links. Also this function exports table of links as well as plot links onto the genome reference.

Usage

processReadLinks(gr.links, min.reads = 10, chromosomes = NULL, bsgenome = NULL)

Arguments

gr.links	A GRanges-class object with stored links between read pairs.
min.reads	Minimum number of unique reads to support a link.
chromosomes	If only a subset of the chromosomes should be binned, specify them here.
bsgenome	A reference genome to get lengths of genomic sequences (eg. GRCh38).

Author(s)

David Porubsky

daewoooo/primatR documentation built on March 28, 2024, 6:41 a.m.