easy_Iset_to_LFM: Convert an InteractionSet into a sparse, upper triangle...

Description Usage Arguments Value Examples

View source: R/conversion.R

Description

Wrapper for Iset_to_LFM (no subsetting) and Iset_region_to_LFM (subsetting by chromosome and, if required, by region).

Usage

1
easy_Iset_to_LFM(Iset, chr = NULL, from = NULL, to = NULL)

Arguments

Iset

An interactionSet object, with the bin size stored as metadata under the name 'binSize'.

chr

Optional. The chromosome name to be plotted with or without 'chr', depending on your interactionSet object.

from

Optional. Start of the region you want to select. If NULL, the start of the chromosome will be 'from'.

to

Optional. End of the region you want to select. If NULL, the end of the chromosome will be 'to'.

Value

A sparse, upper triangle ligation frequency matrix.

Examples

1
2
# LFM <- easy_Iset_to_LFM(Iset)
# chr2_1_300000 <- easy_Iset_to_LFM(Iset, chr = 2, from = 1, to = 300000)

AnnikaGable/chromium documentation built on July 12, 2018, 4 p.m.