transTarget is an R package for visualizing genome-wide trans-acting genomic interactions using arc plots.
It is designed to map interactions from a single point (e.g. eRNA, enhancer, locus, mutation, gene) to multiple distal genomic targets across chromosomes using a concatenated genome representation.
devtools::install_github("nataliabenova/transTarget")
library(transTarget)
data(eRNA_interactions)
arc_plot( eRNA_interactions, s = "support", l = "ID.y", n_bins = 2 )
The input data frame must contain:
- ID.x — anchor ID (must be a single unique value)
- ID.y — target ID
- chr.x, start.x, end.x — anchor coordinates
- chr.y, start.y, end.y — target coordinates
Optional:
- support — numeric evidence score (otherwise computed automatically)
