combineUMI4C: Combine UMI4C fragments

In Pasquali-lab/UMI4Cats: UMI4Cats: Processing, analysis and visualization of UMI-4C chromatin contact data

Combine UMI4C fragments

Description

Combine the UMI4C fragments that overlap a given set of query_regions.

Usage

combineUMI4C(umi4c, query_regions)

Arguments

umi4c	UMI4C object as generated by makeUMI4C or the UMI4C constructor.
query_regions	GRanges object containing the coordinates of the genomic regions for combining restriction fragments.

Value

UMI4C object with rowRanges corresponding to query_regions and assay containing the sum of raw UMI counts at each specified query_region.

Examples

data("ex_ciita_umi4c")

wins <- makeWindowFragments(ex_ciita_umi4c)
umi_comb <- combineUMI4C(ex_ciita_umi4c, wins)

Pasquali-lab/UMI4Cats documentation built on March 23, 2024, 9:42 p.m.