add.covariates: add.covariates

In chicane: Capture Hi-C Analysis Engine

Description

Add model covariates (trans counts and distance) to an interactions data table.

Usage

add.covariates(interaction.data)

Arguments

interaction.data

data.table with interaction data. Must contain columns bait.id, target.id, bait.chr, bait.start, bait.end, target.chr, target.start, target.end and count.

Value

Updated data table with new columns

bait.trans.count	number of trans interactions of bait fragment
target.trans.count	number of trans interactions of target fragment
distance	distance between bait and target fragment, or NA if trans

Author(s)

Erle Holgersen <[e-mail]>

Examples

	data(bre80);
input.cols <- c('bait.id', 'target.id', 'bait.chr', 'bait.start', 
	'bait.end', 'target.chr', 'target.start', 'target.end', 'count');
output <- add.covariates(bre80[, input.cols, with = FALSE]);

chicane documentation built on Nov. 7, 2021, 1:07 a.m.